Fibronectin is a major extracellular matrix (ECM) glycoprotein and one of the most important adhesion molecules in vertebrates. This large 2477 amino acid multidomain protein exists as a dimer and contains three types of repeating modules (FN-I, FN-II, and FN-III repeats) that create distinct binding sites for cells and other ECM components. The core functions of fibronectin center on organizing the ECM architecture and mediating cell-ECM interactions. Through its RGD motif in the FN-III10 domain, fibronectin directly binds integrin receptors (particularly alpha5beta1, alpha4beta1, alphaVbeta3) to mediate cell adhesion, migration, and signaling. Fibronectin serves as a key structural organizer by binding collagen types I-V and VII, assembling into fibrillar networks, and coordinating ECM assembly. It also binds fibrin through N-terminal and C-terminal sites, playing critical roles in provisional matrix formation during wound healing and hemostasis. Additional functions include binding heparin/heparan sulfate proteoglycans and serving as a ligand for various cell surface receptors. Fibronectin is essential for embryonic development, particularly in mesoderm formation, neural crest cell migration, heart development, and vascular morphogenesis. While the protein participates in numerous biological contexts including wound healing, angiogenesis, and platelet function, its fundamental role is as an ECM structural constituent and cell adhesion scaffold that integrates mechanical and biochemical signals at the cell-matrix interface.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
|
GO:0007399
nervous system development
|
IBA
GO_REF:0000033 |
KEEP AS NON CORE |
Summary: Fibronectin plays important roles in neural crest cell migration and nervous system development during embryogenesis. However, this represents a developmental context rather than a core molecular function of the mature protein.
Reason: While experimentally validated (PMID:26571399 demonstrates FN1 role in neural crest cell migration for enteric nervous system development), nervous system development represents a specific developmental context. The core function is ECM-mediated cell adhesion and migration; nervous system development is one of many developmental processes where these core functions are deployed. Appropriate to retain but mark as non-core.
Supporting Evidence:
PMID:26571399
This appears to be due to the fact that collagen VI is a poor substratum for supporting eNCC migration and can even interfere with the migration-promo...
|
|
GO:0007044
cell-substrate junction assembly
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: Fibronectin is a key component in assembling focal adhesions and cell-substrate junctions through integrin engagement. This is a core function directly related to fibronectin's role as a cell adhesion substrate.
Reason: Cell-substrate junction assembly (focal adhesion formation) is a direct and core consequence of fibronectin-integrin interactions. The RGD motif in FN-III10 mediates integrin binding which triggers focal adhesion assembly. Multiple experimental studies confirm fibronectin's central role in this process. This IBA annotation is well-supported and represents core fibronectin biology.
Supporting Evidence:
PMID:19126672
Spontaneous phosphoinositide 3-kinase signaling dynamics drive spreading and random migration of fibroblasts
PMID:24658351
Structural basis for pure antagonism of integrin αVβ3 by a high-affinity form of fibronectin
|
|
GO:0007160
cell-matrix adhesion
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: Cell-matrix adhesion is one of the most fundamental and core functions of fibronectin. Through integrin binding (RGD motif), fibronectin directly mediates cell attachment to the ECM. Deep research confirms fibronectin's primary role as a cell-adhesive ECM glycoprotein that forms fibrillar networks (FN1-deep-research-falcon.md).
Reason: This annotation captures the quintessential function of fibronectin as a major cell adhesion molecule. Fibronectin serves as the primary ligand for multiple integrins (alpha5beta1, alpha4beta1, alphaVbeta3, alphaVbeta1, alphaVbeta6, alpha8beta1) mediating cell-matrix adhesion. This is extensively validated across decades of research and represents core fibronectin biology. The IBA annotation is phylogenetically sound. Cryo-EM structures show three simultaneous FN-integrin interactions at the synergy site, RGD loop, and ADMIDAS (PMID:33962943).
Supporting Evidence:
PMID:33962943
The complex of integrin alpha5beta1 with FN7-10 shows three simultaneous interactions critical for the stabilization of integrin opening, namely, (i) at the synergy site of FN9, (ii) at the RGD loop of FN10, and (iii) at the adjacent to MIDAS (ADMIDAS) of the integrin beta1 betaI domain.
file:human/FN1/FN1-deep-research-falcon.md
Fibronectin's primary role is as a cell-adhesive ECM glycoprotein that forms fibrillar networks and functions as a scaffold to organize other ECM components and associated signaling molecules.
|
|
GO:0007507
heart development
|
IBA
GO_REF:0000033 |
KEEP AS NON CORE |
Summary: Fibronectin is essential for cardiac morphogenesis and heart development, particularly in cardiac cushion formation and valve development. However, like nervous system development, this represents a specific developmental context.
Reason: While fibronectin is critical for heart development (particularly endocardial cushion formation and valve morphogenesis), this represents application of core adhesion/migration functions in a specific developmental context. Heart development is one of many developmental processes requiring fibronectin. The underlying core functions are ECM organization and cell adhesion/migration. Appropriate as non-core.
Supporting Evidence:
GO_REF:0000033
|
|
GO:0005178
integrin binding
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: Integrin binding is a core molecular function of fibronectin. The RGD sequence in the FN-III10 domain directly binds integrin alpha5beta1, and other sites engage additional integrins.
Reason: This is a fundamental molecular function annotation representing direct protein-protein interaction. Fibronectin contains the canonical RGD motif (Arg-Gly-Asp) in the 10th type III repeat that is the primary recognition site for integrin alpha5beta1. Additional integrin binding sites exist for alpha4beta1 (via CS-1 region), alphaVbeta3, and others. Extensively validated by structural and biochemical studies. This is core fibronectin function.
Supporting Evidence:
PMID:33962943
Structural insights into integrin α(5)β(1) opening by fibronectin ligand
PMID:11792823
Fibulin-1 suppression of fibronectin-regulated cell adhesion and motility
PMID:19738201
Quantitative, comparative analyses of the proteomes of two receptor-ligand pairs, alpha(4)beta(1)-vascular cell adhesion molecule-1 and alpha(5)beta(1...
|
|
GO:0043394
proteoglycan binding
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: Fibronectin binds proteoglycans and heparan sulfate through specific heparin-binding domains. This is a well-characterized core molecular function important for ECM organization.
Reason: Fibronectin contains three heparin-binding sites (Hep I, Hep II, Hep III) that mediate binding to heparan sulfate proteoglycans including syndecans and perlecan. This interaction is important for fibronectin matrix assembly and ECM organization. Multiple studies validate proteoglycan binding as a core molecular function. The IBA annotation is appropriate.
Supporting Evidence:
PMID:29030641
Lubricin binds cartilage proteins, cartilage oligomeric matrix protein, fibronectin and collagen II at the cartilage surface
file:human/FN1/FN1-uniprot.txt
|
|
GO:0001525
angiogenesis
|
IEA
GO_REF:0000043 |
KEEP AS NON CORE |
Summary: Fibronectin supports angiogenesis through ECM scaffolding and integrin-mediated endothelial cell adhesion and migration. While important, this is a specific biological context rather than core function.
Reason: Angiogenesis represents a specific biological process where fibronectin's core adhesion and migration functions are deployed. The anastellin fragment can inhibit angiogenesis (PMID:11209058), and fibronectin supports endothelial cell migration (PMID:20123964). However, angiogenesis is one of many processes utilizing fibronectin's core functions. This IEA annotation from keyword mapping is too general for core function. Mark as non-core.
Supporting Evidence:
PMID:20123964
In subconfluent ECs, LPP3 induced expression of fibronectin via beta-catenin/LEF-1 signaling in a phosphatase and tensin homologue (PTEN)-dependent ma...
|
|
GO:0002020
protease binding
|
IEA
GO_REF:0000117 |
ACCEPT |
Summary: Fibronectin binds various proteases including cathepsins and MMPs. While validated, this is less specific than other molecular function terms describing fibronectin's binding activities.
Reason: Experimentally validated by PMID:22952693 showing cathepsin S cleavage of nidogen-1 affecting fibronectin binding. Fibronectin is also a substrate for multiple matrix metalloproteinases (MMPs). While this annotation is somewhat general, it describes a real molecular interaction. The ARBA machine learning annotation is supported by experimental evidence. Accept but note this is less informative than specific binding partner annotations.
Supporting Evidence:
PMID:22952693
Cleavage of nidogen-1 by cathepsin S impairs its binding to basement membrane partners.
|
|
GO:0005576
extracellular region
|
IEA
GO_REF:0000120 |
MODIFY |
Summary: Fibronectin is secreted and localized to the extracellular space and ECM. This is accurate but overly broad - more specific cellular component terms exist.
Reason: While factually correct that fibronectin is in the extracellular region, this is too general. More specific and informative terms include GO:0031012 (extracellular matrix) and GO:0005615 (extracellular space). This IEA annotation should be replaced with the more specific GO:0031012 which better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
file:human/FN1/FN1-uniprot.txt
|
|
GO:0006953
acute-phase response
|
IEA
GO_REF:0000043 |
KEEP AS NON CORE |
Summary: Fibronectin can be upregulated during acute-phase response as part of tissue repair. This represents a specific physiological context.
Reason: Fibronectin levels can increase during acute inflammation and tissue injury as part of provisional matrix formation and wound healing. However, this represents a regulatory context rather than core function. The acute-phase response is one of many physiological situations where fibronectin participates. The core functions are ECM organization and cell adhesion. Mark as non-core.
Supporting Evidence:
GO_REF:0000043
|
|
GO:0007155
cell adhesion
|
IEA
GO_REF:0000043 |
ACCEPT |
Summary: Cell adhesion is a core function of fibronectin, mediating attachment of cells to ECM through integrin binding. This IEA annotation correctly captures fundamental fibronectin biology.
Reason: This is essentially equivalent to the more specific GO:0007160 (cell-matrix adhesion) and represents a core function. Fibronectin is one of the most important cell adhesion molecules in vertebrates. Through integrin binding, it mediates cell attachment, spreading, and migration. Extensively validated across literature. Accept this IEA annotation as accurate, though GO:0007160 (cell-matrix adhesion) is more specific.
Supporting Evidence:
PMID:1423622
The three-dimensional structure of the tenth type III module of fibronectin: an insight into RGD-mediated interactions
file:human/FN1/FN1-uniprot.txt
|
|
GO:0008201
heparin binding
|
IEA
GO_REF:0000043 |
ACCEPT |
Summary: Heparin binding is a well-characterized core molecular function of fibronectin through three distinct heparin-binding domains (Hep I, II, III).
Reason: Fibronectin contains three separate heparin-binding sites that mediate interactions with heparin and heparan sulfate proteoglycans. This is extensively characterized structurally and functionally. Heparin binding is important for fibronectin matrix assembly and ECM organization. NAS evidence from PMID:10075919 provides structural characterization. This IEA keyword-based annotation is accurate and represents core molecular function.
Supporting Evidence:
PMID:10075919
Crystal structure of a heparin- and integrin-binding segment of human fibronectin
|
|
GO:0008360
regulation of cell shape
|
IEA
GO_REF:0000043 |
KEEP AS NON CORE |
Summary: Fibronectin influences cell shape through integrin-mediated cytoskeletal reorganization during adhesion and spreading. This is a downstream consequence of cell adhesion.
Reason: Cell shape regulation occurs as a consequence of fibronectin-integrin interactions triggering cytoskeletal reorganization. While valid, this is an indirect effect downstream of the core adhesion function rather than a direct molecular activity. Cells spread and change shape when adhering to fibronectin substrates, but this is secondary to the primary function of integrin binding and focal adhesion formation. Mark as non-core.
Supporting Evidence:
PMID:19126672
Spontaneous phosphoinositide 3-kinase signaling dynamics drive spreading and random migration of fibroblasts
|
|
GO:0005102
signaling receptor binding
|
IEA
GO_REF:0000107 |
ACCEPT |
Summary: Fibronectin binds integrin receptors and other cell surface receptors. This is accurate but somewhat general compared to the more specific integrin binding term.
Reason: Fibronectin acts as a ligand for multiple cell surface receptors including integrins (alpha5beta1, alpha4beta1, alphaVbeta3, etc.) and other receptors like ILT3/LILRB4 (PMID:34089617). While GO:0005178 (integrin binding) is more specific and informative, this broader term is also accurate. The IEA annotation from Ensembl orthology is valid. Accept as it captures fibronectin's receptor-binding function.
Supporting Evidence:
PMID:34089617
Blockade of checkpoint ILT3/LILRB4/gp49B binding to fibronectin ameliorates autoimmune disease in BXSB/Yaa mice
|
|
GO:0005604
basement membrane
|
IEA
GO_REF:0000107 |
KEEP AS NON CORE |
Summary: Fibronectin is present in basement membranes but is more characteristic of interstitial ECM. Plasma fibronectin is distinct from cellular fibronectin in basement membranes.
Reason: While fibronectin can be found in basement membranes, it is not a core structural component like laminin, collagen IV, nidogen, and perlecan. Fibronectin is more abundant in interstitial ECM. The cellular fibronectin isoform (containing EIIIA and EIIIB domains) is found in some basement membrane zones, but this is a minor localization. The primary fibronectin localization is GO:0031012 (extracellular matrix). Mark as non-core.
Supporting Evidence:
GO_REF:0000107
|
|
GO:0005615
extracellular space
|
IEA
GO_REF:0000120 |
ACCEPT |
Summary: Fibronectin is secreted into the extracellular space where it assembles into ECM fibrils. This is a correct core localization annotation.
Reason: Fibronectin is a secreted protein that localizes to the extracellular space. Both plasma fibronectin (soluble in blood/body fluids) and cellular fibronectin (assembled into ECM) occupy extracellular space. Extensively validated by experimental localization (PMID:15292204 IDA evidence). This is an appropriate and accurate cellular component annotation for a major ECM protein.
Supporting Evidence:
PMID:15292204
BBK32, a fibronectin binding MSCRAMM from Borrelia burgdorferi, contains a disordered region that undergoes a conformational change on ligand binding
|
|
GO:0014850
response to muscle activity
|
IEA
GO_REF:0000107 |
KEEP AS NON CORE |
Summary: Fibronectin expression can be modulated by mechanical forces including muscle activity. This represents a regulatory context rather than core function.
Reason: Mechanical forces and muscle activity can influence fibronectin expression and matrix remodeling in musculoskeletal tissues. However, this is a specific physiological context of fibronectin regulation rather than a core molecular function. Response to muscle activity is peripheral to the core ECM organization and cell adhesion functions. Mark as non-core.
Supporting Evidence:
GO_REF:0000107
|
|
GO:0016324
apical plasma membrane
|
IEA
GO_REF:0000107 |
REMOVE |
Summary: Fibronectin can be associated with apical surfaces of polarized epithelia, but this is not a primary or characteristic localization.
Reason: This IEA annotation from Ensembl orthology is likely incorrect or represents a very minor localization. Fibronectin is primarily an extracellular matrix and extracellular space protein. While fibronectin may interact with cells at apical surfaces in some epithelial contexts, this is not a characteristic localization and lacks strong experimental support. The primary localizations (ECM, extracellular space) are better represented by other annotations. Remove as not representative of core fibronectin biology.
Supporting Evidence:
GO_REF:0000107
|
|
GO:0016504
peptidase activator activity
|
IEA
GO_REF:0000107 |
REMOVE |
Summary: Fibronectin fragments can modulate protease activity, but this is not a well-established core molecular function of intact fibronectin.
Reason: While fibronectin can be cleaved by proteases and may influence protease activity in certain contexts, peptidase activator activity is not a well-documented core molecular function. The IEA annotation from Ensembl orthology lacks strong experimental support. Fibronectin is primarily a substrate for proteases (MMPs, cathepsins) rather than an activator. No compelling evidence supports this as a core function. Remove.
Supporting Evidence:
GO_REF:0000107
|
|
GO:0031012
extracellular matrix
|
IEA
GO_REF:0000107 |
ACCEPT |
Summary: Extracellular matrix is the primary and most characteristic localization of fibronectin. This is a core cellular component annotation.
Reason: This is the most important cellular component annotation for fibronectin. Fibronectin is one of the major structural constituents of the ECM, assembling into fibrillar networks that organize the matrix architecture. Both cellular and plasma fibronectin ultimately localize to and organize ECM. Extensively validated across decades of research and multiple experimental approaches (IDA, HDA, ISS evidence in other annotations). This IEA annotation is accurate and represents core fibronectin localization.
Supporting Evidence:
PMID:26571399
This appears to be due to the fact that collagen VI is a poor substratum for supporting eNCC migration and can even interfere with the migration-promo...
PMID:16157329
Sequential deposition of latent TGF-beta binding proteins (LTBPs) during formation of the extracellular matrix in human lung fibroblasts
|
|
GO:0048018
receptor ligand activity
|
IEA
GO_REF:0000107 |
ACCEPT |
Summary: Fibronectin acts as a ligand for integrin receptors and other cell surface receptors, mediating cell signaling. This is a valid molecular function.
Reason: Fibronectin functions as a bona fide receptor ligand, particularly for integrin receptors (alpha5beta1, alpha4beta1, alphaVbeta3, etc.) where it triggers intracellular signaling cascades upon binding. This leads to focal adhesion kinase activation, MAPK signaling, PI3K/Akt pathway activation, and other downstream events. The term accurately describes fibronectin's role in receptor-mediated signaling. Accept as valid molecular function.
Supporting Evidence:
PMID:19126672
Spontaneous phosphoinositide 3-kinase signaling dynamics drive spreading and random migration of fibroblasts
PMID:11792823
Fibulin-1 suppression of fibronectin-regulated cell adhesion and motility
|
|
GO:0150102
negative regulation of monocyte activation
|
IEA
GO_REF:0000107 |
KEEP AS NON CORE |
Summary: Fibronectin can modulate monocyte activation through receptor interactions, including inhibitory checkpoint receptors.
Reason: PMID:34089617 demonstrates that blockade of fibronectin binding to checkpoint receptor ILT3/LILRB4 ameliorates autoimmune disease by affecting monocyte activation. While experimentally validated, this represents a specific immunomodulatory function in a particular disease context rather than a core function. The fundamental role is receptor binding; monocyte regulation is a downstream consequence in specific contexts. Mark as non-core.
Supporting Evidence:
PMID:34089617
Blockade of checkpoint ILT3/LILRB4/gp49B binding to fibronectin ameliorates autoimmune disease in BXSB/Yaa mice
|
|
GO:0005515
protein binding
|
IPI
PMID:11377428 Binding of a peptide from a Streptococcus dysgalactiae MSCRA... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:11377428
Binding of a peptide from a Streptococcus dysgalactiae MSCRAMM to the N-terminal F1 module pair of human fibronectin involves both modules
|
|
GO:0005515
protein binding
|
IPI
PMID:12736686 Pathogenic bacteria attach to human fibronectin through a ta... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:12736686
Pathogenic bacteria attach to human fibronectin through a tandem beta-zipper
|
|
GO:0005515
protein binding
|
IPI
PMID:16457822 CT domain of CCN2/CTGF directly interacts with fibronectin a... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:16457822
CT domain of CCN2/CTGF directly interacts with fibronectin and enhances cell adhesion of chondrocytes through integrin alpha5beta1
|
|
GO:0005515
protein binding
|
IPI
PMID:1747115 Interaction of the small proteoglycan decorin with fibronect... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:1747115
Interaction of the small proteoglycan decorin with fibronectin
|
|
GO:0005515
protein binding
|
IPI
PMID:18042364 TSG-6 binds via its CUB_C domain to the cell-binding domain ... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:18042364
TSG-6 binds via its CUB_C domain to the cell-binding domain of fibronectin and increases fibronectin matrix assembly
|
|
GO:0005515
protein binding
|
IPI
PMID:18160478 Novel adhesin from Pasteurella multocida that binds to the i... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:18160478
Novel adhesin from Pasteurella multocida that binds to the integrin-binding fibronectin FnIII9-10 repeats
|
|
GO:0005515
protein binding
|
IPI
PMID:18243143 Uteroglobin interacts with the heparin-binding site of fibro... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:18243143
Uteroglobin interacts with the heparin-binding site of fibronectin and prevents fibronectin-IgA complex formation found in IgA-nephropathy
|
|
GO:0005515
protein binding
|
IPI
PMID:18323857 NEDD8 acts as a 'molecular switch' defining the functional s... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:18323857
The von Hippel-Lindau (VHL) tumour suppressor protein is important in the E3 ubiquitin ligase ECV (Elongin B/C-CUL2-VHL)-mediated destruction of hypox...
|
|
GO:0005515
protein binding
|
IPI
PMID:18411296 The surface-exposed carboxyl region of Mycoplasma pneumoniae... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:18411296
The surface-exposed carboxyl region of Mycoplasma pneumoniae elongation factor Tu interacts with fibronectin
|
|
GO:0005515
protein binding
|
IPI
PMID:18713862 Crystal structures of fibronectin-binding sites from Staphyl... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:18713862
Crystal structures of fibronectin-binding sites from Staphylococcus aureus FnBPA in complex with fibronectin domains
|
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GO:0005515
protein binding
|
IPI
PMID:19542224 The first draft of the endostatin interaction network. |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:19542224
Epub 2009 Jun 19. The first draft of the endostatin interaction network.
|
|
GO:0005515
protein binding
|
IPI
PMID:19738201 Proteomic analysis of integrin-associated complexes identifi... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:19738201
Quantitative, comparative analyses of the proteomes of two receptor-ligand pairs, alpha(4)beta(1)-vascular cell adhesion molecule-1 and alpha(5)beta(1...
|
|
GO:0005515
protein binding
|
IPI
PMID:20080707 EGF potentiated oncogenesis requires a tissue transglutamina... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:20080707
EGF potentiated oncogenesis requires a tissue transglutaminase-dependent signaling pathway leading to Src activation.
|
|
GO:0005515
protein binding
|
IPI
PMID:20541508 Zinc induces structural reorganization of gelatin binding do... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:20541508
Zinc induces structural reorganization of gelatin binding domain from human fibronectin and affects collagen binding
|
|
GO:0005515
protein binding
|
IPI
PMID:20875085 Functional analysis of a murine monoclonal antibody against ... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:20875085
Functional analysis of a murine monoclonal antibody against the repetitive region of the fibronectin-binding adhesins fibronectin-binding protein A an...
|
|
GO:0005515
protein binding
|
IPI
PMID:20879998 Repeat regions R1 and R2 in the P97 paralogue Mhp271 of Myco... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:20879998
Repeat regions R1 and R2 in the P97 paralogue Mhp271 of Mycoplasma hyopneumoniae bind heparin, fibronectin and porcine cilia
|
|
GO:0005515
protein binding
|
IPI
PMID:21569203 The A domain of fibronectin-binding protein B of Staphylococ... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:21569203
The A domain of fibronectin-binding protein B of Staphylococcus aureus contains a novel fibronectin binding site
|
|
GO:0005515
protein binding
|
IPI
PMID:22442151 Transglutaminase-2 interaction with heparin: identification ... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:22442151
Transglutaminase-2 interaction with heparin: identification of a heparin binding site that regulates cell adhesion to fibronectin-transglutaminase-2 m...
|
|
GO:0005515
protein binding
|
IPI
PMID:24136289 Identification and comparative analysis of hepatitis C virus... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:24136289
Identification and comparative analysis of hepatitis C virus-host cell protein interactions.
|
|
GO:0005515
protein binding
|
IPI
PMID:24388360 SERPINA5 inhibits tumor cell migration by modulating the fib... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:24388360
SERPINA5 inhibits tumor cell migration by modulating the fibronectin-integrin β1 signaling pathway in hepatocellular carcinoma
|
|
GO:0005515
protein binding
|
IPI
PMID:25034023 Heparin/heparan sulfate controls fibrillin-1, -2 and -3 self... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:25034023
Epub 2014 Jul 14. Heparin/heparan sulfate controls fibrillin-1, -2 and -3 self-interactions in microfibril assembly.
|
|
GO:0005515
protein binding
|
IPI
PMID:25290767 Structural and functional analysis of the fibronectin-bindin... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:25290767
Structural and functional analysis of the fibronectin-binding protein FNE from Streptococcus equi spp
|
|
GO:0005515
protein binding
|
IPI
PMID:25293691 Proteolytic processing of the cilium adhesin MHJ_0194 (P123J... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:25293691
Affinity chromatography using heparin, fibronectin and plasminogen as bait and peptide arrays were used to expand our knowledge of the adhesive capabi...
|
|
GO:0005515
protein binding
|
IPI
PMID:2531657 Lipoprotein(a) binds to fibronectin and has serine proteinas... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:2531657
Lipoprotein(a) binds to fibronectin and has serine proteinase activity capable of cleaving it
|
|
GO:0005515
protein binding
|
IPI
PMID:25416956 A proteome-scale map of the human interactome network. |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:25416956
A proteome-scale map of the human interactome network.
|
|
GO:0005515
protein binding
|
IPI
PMID:26848503 Mapping and Exploring the Collagen-I Proteostasis Network. |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:26848503
Epub 2016 Mar 9. Mapping and Exploring the Collagen-I Proteostasis Network.
|
|
GO:0005515
protein binding
|
IPI
PMID:27141819 Mycobacterial antigen 85 complex (Ag85) as a target for fico... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:27141819
Furthermore, those PRMs also bound to fibronectin and therefore might influence the Ag85 complex-dependent interaction of Mycobacterium with the extra...
|
|
GO:0005515
protein binding
|
IPI
PMID:27616280 Interactions of surface-displayed glycolytic enzymes of Myco... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:27616280
interactions of the previously confirmed surface-located glycolytic enzymes...to the human extracellular matrix (ECM) proteins fibrinogen (Fn), fibronectin (Fc), lactoferrin (Lf), laminin (Ln) and vitronectin (Vc)
|
|
GO:0005515
protein binding
|
IPI
PMID:30082873 Insights into the structure and dynamics of lysyl oxidase pr... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:30082873
Lysyl oxidase (LOX) catalyzes the oxidative deamination of lysine and hydroxylysine residues in collagens and elastin, which is the first step of the ...
|
|
GO:0005515
protein binding
|
IPI
PMID:31759052 Scavenger Receptor Cysteine-Rich domains of Lysyl Oxidase-Li... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:31759052
We here provide evidence that LOXL2 also affects deposition of other ECM components, including fibronectin, thus altering structural and mechanical pr...
|
|
GO:0005515
protein binding
|
IPI
PMID:33961781 Dual proteome-scale networks reveal cell-specific remodeling... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:33961781
2021 May 6. Dual proteome-scale networks reveal cell-specific remodeling of the human interactome.
|
|
GO:0005515
protein binding
|
IPI
PMID:34968453 Stabilin-1 mediates beneficial monocyte recruitment and tole... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:34968453
Yeast two-hybrid screening, confirmed by affinity chromatography, identified fibronectin as a stabilin-1 interacting partner
|
|
GO:0005515
protein binding
|
IPI
PMID:9269765 Novel interaction of apolipoprotein(a) with beta-2 glycoprot... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:9269765
Among 11 positive clones that emerged from the screen, eight clones were identified as beta-2 glycoprotein I and one as fibronectin
|
|
GO:0042802
identical protein binding
|
IPI
PMID:17914904 Force-induced unfolding of fibronectin in the extracellular ... |
ACCEPT |
Summary: Fibronectin forms homodimers through C-terminal disulfide bonds. This is a core molecular function.
Reason: Fibronectin exists as a disulfide-bonded dimer. Two monomers link via C-terminal disulfide bonds, essential for function and matrix assembly. This is a core molecular property validated by structural studies. IPI annotations correctly capture this fundamental aspect of fibronectin biology.
Supporting Evidence:
PMID:17914904
Force-induced unfolding of fibronectin in the extracellular matrix of living cells
|
|
GO:0042802
identical protein binding
|
IPI
PMID:18042364 TSG-6 binds via its CUB_C domain to the cell-binding domain ... |
ACCEPT |
Summary: Fibronectin forms homodimers through C-terminal disulfide bonds. This is a core molecular function.
Reason: Fibronectin exists as a disulfide-bonded dimer. Two monomers link via C-terminal disulfide bonds, essential for function and matrix assembly. This is a core molecular property validated by structural studies. IPI annotations correctly capture this fundamental aspect of fibronectin biology.
Supporting Evidence:
PMID:18042364
TSG-6 binds via its CUB_C domain to the cell-binding domain of fibronectin and increases fibronectin matrix assembly
|
|
GO:0042802
identical protein binding
|
IPI
PMID:19826086 Fibronectin forms the most extensible biological fibers disp... |
ACCEPT |
Summary: Fibronectin forms homodimers through C-terminal disulfide bonds. This is a core molecular function.
Reason: Fibronectin exists as a disulfide-bonded dimer. Two monomers link via C-terminal disulfide bonds, essential for function and matrix assembly. This is a core molecular property validated by structural studies. IPI annotations correctly capture this fundamental aspect of fibronectin biology.
Supporting Evidence:
PMID:19826086
Fibronectin forms the most extensible biological fibers displaying switchable force-exposed cryptic binding sites
|
|
GO:0042802
identical protein binding
|
IPI
PMID:19931242 The interaction of angiocidin with tissue transglutaminase. |
ACCEPT |
Summary: Fibronectin forms homodimers through C-terminal disulfide bonds. This is a core molecular function.
Reason: Fibronectin exists as a disulfide-bonded dimer. Two monomers link via C-terminal disulfide bonds, essential for function and matrix assembly. This is a core molecular property validated by structural studies. IPI annotations correctly capture this fundamental aspect of fibronectin biology.
Supporting Evidence:
PMID:19931242
Cross-linked angiocidin inhibited cell migration in contrast to monomeric angiocidin and inhibited localization of fibronectin (FN), a pro-tumorigenic...
|
|
GO:0042802
identical protein binding
|
IPI
PMID:20541508 Zinc induces structural reorganization of gelatin binding do... |
ACCEPT |
Summary: Fibronectin forms homodimers through C-terminal disulfide bonds. This is a core molecular function.
Reason: Fibronectin exists as a disulfide-bonded dimer. Two monomers link via C-terminal disulfide bonds, essential for function and matrix assembly. This is a core molecular property validated by structural studies. IPI annotations correctly capture this fundamental aspect of fibronectin biology.
Supporting Evidence:
PMID:20541508
Zinc induces structural reorganization of gelatin binding domain from human fibronectin and affects collagen binding
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-3788061 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-3788061
|
|
GO:0005788
endoplasmic reticulum lumen
|
TAS
Reactome:R-HSA-8952289 |
ACCEPT |
Summary: Fibronectin is synthesized and modified in the ER during secretion. Minor localization annotation.
Reason: As a secreted glycoprotein, fibronectin is synthesized in the ER. This represents the secretory pathway rather than functional localization. Accurate but represents trafficking. Accept as valid but note this is transient, not functional localization.
Supporting Evidence:
Reactome:R-HSA-8952289
|
|
GO:0005577
fibrinogen complex
|
IPI
PMID:20541508 Zinc induces structural reorganization of gelatin binding do... |
ACCEPT |
Summary: Fibronectin binds fibrin/fibrinogen forming complexes important for provisional matrix and wound healing.
Reason: Fibronectin contains fibrin-binding sites at N-terminal and C-terminal regions. Interaction with fibrin(ogen) is critical for provisional matrix formation during hemostasis and wound healing. Experimentally validated. Core molecular interaction. Accept.
Supporting Evidence:
PMID:20541508
Zinc induces structural reorganization of gelatin binding domain from human fibronectin and affects collagen binding
|
|
GO:0005615
extracellular space
|
IDA
PMID:15292204 BBK32, a fibronectin binding MSCRAMM from Borrelia burgdorfe... |
ACCEPT |
Summary: Fibronectin is secreted into extracellular space. Core localization annotation.
Reason: Fibronectin is a secreted protein localizing to extracellular space. Both plasma fibronectin (soluble in body fluids) and cellular fibronectin (assembled into ECM) occupy extracellular space. Appropriate cellular component annotation.
Supporting Evidence:
PMID:15292204
BBK32, a fibronectin binding MSCRAMM from Borrelia burgdorferi, contains a disordered region that undergoes a conformational change on ligand binding
|
|
GO:0072378
blood coagulation, fibrin clot formation
|
IDA
PMID:3997886 Incorporation of thrombospondin into fibrin clots. |
KEEP AS NON CORE |
Summary: Fibronectin participates in fibrin clot formation through fibrin binding, but this is a specific physiological context.
Reason: Fibronectin-fibrin interaction contributes to clot formation and provisional matrix assembly (PMID:3997886). However, blood coagulation represents one specific biological context where fibronectin's core binding functions are deployed. The fundamental activities are fibrin binding and ECM organization. Mark as non-core.
Supporting Evidence:
PMID:3997886
In contrast, incorporation of 125I-fibronectin into clots was dependent upon cross-linking
|
|
GO:0031012
extracellular matrix
|
HDA
PMID:23658023 Comparative proteomic analysis of supportive and unsupportiv... |
ACCEPT |
Summary: Extracellular matrix is fibronectin's primary localization. Accurate HDA annotation.
Reason: High-throughput detection assays confirm fibronectin as an ECM component. While multiple HDA annotations exist, they come from different studies/contexts. ECM is the core localization. Accept but note some redundancy across annotations.
Supporting Evidence:
PMID:23658023
We show that identified candidate molecules can support attachment and self-renewal of hESCs alone (fibrillin-1) or in combination with fibronectin (p...
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-1566981 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-1566981
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-202723 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-202723
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-216050 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-216050
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-2327733 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-2327733
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-2327746 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-2327746
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-2396337 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-2396337
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-2533950 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-2533950
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-2537665 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-2537665
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-2545196 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-2545196
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-2681681 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-2681681
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-2731141 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-2731141
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-349593 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-349593
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-354066 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-354066
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-354073 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-354073
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-354087 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-354087
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-354124 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-354124
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-354149 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-354149
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-354165 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-354165
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-372693 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-372693
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-372697 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-372697
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-372705 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-372705
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-377640 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-377640
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-377641 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-377641
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-377643 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-377643
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-377644 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-377644
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-3785684 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-3785684
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-429415 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-429415
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-429441 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-429441
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-481007 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-481007
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-6785895 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-6785895
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-9624017 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-9624017
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-9638552 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-9638552
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-9865226 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-9865226
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-9932034 |
MODIFY |
Summary: Extracellular region annotation - too general, should use extracellular matrix.
Reason: While fibronectin is in the extracellular region, this term is too general. The more specific GO:0031012 (extracellular matrix) better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
Reactome:R-HSA-9932034
|
|
GO:0031093
platelet alpha granule lumen
|
TAS
Reactome:R-HSA-481007 |
ACCEPT |
Summary: Plasma fibronectin is stored in platelet alpha granules and released upon activation.
Reason: Fibronectin is a known component of platelet alpha granules, released during platelet activation for hemostasis and provisional matrix formation. Well-documented localization for plasma fibronectin pool. Accept as valid cellular component annotation.
Supporting Evidence:
Reactome:R-HSA-481007
|
|
GO:0043542
endothelial cell migration
|
IDA
PMID:20123964 Lipid phosphate phosphatase 3 stabilization of beta-catenin ... |
KEEP AS NON CORE |
Summary: Fibronectin supports endothelial cell migration, but this is a cell-type-specific process.
Reason: PMID:20123964 demonstrates fibronectin-mediated endothelial cell migration. However, this represents application of core cell adhesion/migration functions in a specific cell type (angiogenesis context). Fibronectin mediates migration of many cell types. Mark as non-core.
Supporting Evidence:
PMID:20123964
In subconfluent ECs, LPP3 induced expression of fibronectin via beta-catenin/LEF-1 signaling in a phosphatase and tensin homologue (PTEN)-dependent ma...
|
|
GO:0005886
plasma membrane
|
TAS
Reactome:R-HSA-9700181 |
KEEP AS NON CORE |
Summary: Fibronectin interacts with integrins at the plasma membrane, but fibronectin itself is extracellular.
Reason: These Reactome annotations refer to fibronectin-integrin complexes at cell surfaces. However, fibronectin is an extracellular protein; plasma membrane localization refers to its binding partners (integrins). This is indirect. Additionally, 12 separate annotations for the same term represent over-annotation. Mark as non-core.
Supporting Evidence:
Reactome:R-HSA-9700181
|
|
GO:0005886
plasma membrane
|
TAS
Reactome:R-HSA-9700190 |
KEEP AS NON CORE |
Summary: Fibronectin interacts with integrins at the plasma membrane, but fibronectin itself is extracellular.
Reason: These Reactome annotations refer to fibronectin-integrin complexes at cell surfaces. However, fibronectin is an extracellular protein; plasma membrane localization refers to its binding partners (integrins). This is indirect. Additionally, 12 separate annotations for the same term represent over-annotation. Mark as non-core.
Supporting Evidence:
Reactome:R-HSA-9700190
|
|
GO:0005886
plasma membrane
|
TAS
Reactome:R-HSA-9700193 |
KEEP AS NON CORE |
Summary: Fibronectin interacts with integrins at the plasma membrane, but fibronectin itself is extracellular.
Reason: These Reactome annotations refer to fibronectin-integrin complexes at cell surfaces. However, fibronectin is an extracellular protein; plasma membrane localization refers to its binding partners (integrins). This is indirect. Additionally, 12 separate annotations for the same term represent over-annotation. Mark as non-core.
Supporting Evidence:
Reactome:R-HSA-9700193
|
|
GO:0005886
plasma membrane
|
TAS
Reactome:R-HSA-9712078 |
KEEP AS NON CORE |
Summary: Fibronectin interacts with integrins at the plasma membrane, but fibronectin itself is extracellular.
Reason: These Reactome annotations refer to fibronectin-integrin complexes at cell surfaces. However, fibronectin is an extracellular protein; plasma membrane localization refers to its binding partners (integrins). This is indirect. Additionally, 12 separate annotations for the same term represent over-annotation. Mark as non-core.
Supporting Evidence:
Reactome:R-HSA-9712078
|
|
GO:0005886
plasma membrane
|
TAS
Reactome:R-HSA-9712079 |
KEEP AS NON CORE |
Summary: Fibronectin interacts with integrins at the plasma membrane, but fibronectin itself is extracellular.
Reason: These Reactome annotations refer to fibronectin-integrin complexes at cell surfaces. However, fibronectin is an extracellular protein; plasma membrane localization refers to its binding partners (integrins). This is indirect. Additionally, 12 separate annotations for the same term represent over-annotation. Mark as non-core.
Supporting Evidence:
Reactome:R-HSA-9712079
|
|
GO:0005886
plasma membrane
|
TAS
Reactome:R-HSA-9712083 |
KEEP AS NON CORE |
Summary: Fibronectin interacts with integrins at the plasma membrane, but fibronectin itself is extracellular.
Reason: These Reactome annotations refer to fibronectin-integrin complexes at cell surfaces. However, fibronectin is an extracellular protein; plasma membrane localization refers to its binding partners (integrins). This is indirect. Additionally, 12 separate annotations for the same term represent over-annotation. Mark as non-core.
Supporting Evidence:
Reactome:R-HSA-9712083
|
|
GO:0005886
plasma membrane
|
TAS
Reactome:R-HSA-9712084 |
KEEP AS NON CORE |
Summary: Fibronectin interacts with integrins at the plasma membrane, but fibronectin itself is extracellular.
Reason: These Reactome annotations refer to fibronectin-integrin complexes at cell surfaces. However, fibronectin is an extracellular protein; plasma membrane localization refers to its binding partners (integrins). This is indirect. Additionally, 12 separate annotations for the same term represent over-annotation. Mark as non-core.
Supporting Evidence:
Reactome:R-HSA-9712084
|
|
GO:0005886
plasma membrane
|
TAS
Reactome:R-HSA-9712085 |
KEEP AS NON CORE |
Summary: Fibronectin interacts with integrins at the plasma membrane, but fibronectin itself is extracellular.
Reason: These Reactome annotations refer to fibronectin-integrin complexes at cell surfaces. However, fibronectin is an extracellular protein; plasma membrane localization refers to its binding partners (integrins). This is indirect. Additionally, 12 separate annotations for the same term represent over-annotation. Mark as non-core.
Supporting Evidence:
Reactome:R-HSA-9712085
|
|
GO:0005886
plasma membrane
|
TAS
Reactome:R-HSA-9724099 |
KEEP AS NON CORE |
Summary: Fibronectin interacts with integrins at the plasma membrane, but fibronectin itself is extracellular.
Reason: These Reactome annotations refer to fibronectin-integrin complexes at cell surfaces. However, fibronectin is an extracellular protein; plasma membrane localization refers to its binding partners (integrins). This is indirect. Additionally, 12 separate annotations for the same term represent over-annotation. Mark as non-core.
Supporting Evidence:
Reactome:R-HSA-9724099
|
|
GO:0005886
plasma membrane
|
TAS
Reactome:R-HSA-9850958 |
KEEP AS NON CORE |
Summary: Fibronectin interacts with integrins at the plasma membrane, but fibronectin itself is extracellular.
Reason: These Reactome annotations refer to fibronectin-integrin complexes at cell surfaces. However, fibronectin is an extracellular protein; plasma membrane localization refers to its binding partners (integrins). This is indirect. Additionally, 12 separate annotations for the same term represent over-annotation. Mark as non-core.
Supporting Evidence:
Reactome:R-HSA-9850958
|
|
GO:0005178
integrin binding
|
IDA
PMID:33962943 Structural insights into integrin α(5)β(1) opening by fibron... |
ACCEPT |
Summary: Integrin binding is a core molecular function mediated by RGD motif and other sites.
Reason: Fibronectin's RGD motif in FN-III10 binds integrin alpha5beta1. Additional sites engage alpha4beta1, alphaVbeta3, and others. Extensively validated by structural and biochemical studies. Core function. Accept.
Supporting Evidence:
PMID:33962943
Structural insights into integrin α(5)β(1) opening by fibronectin ligand
|
|
GO:0005515
protein binding
|
IPI
PMID:33962943 Structural insights into integrin α(5)β(1) opening by fibron... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:33962943
Structural insights into integrin α(5)β(1) opening by fibronectin ligand
|
|
GO:0005515
protein binding
|
IPI
PMID:12167537 Several regions of the repeat domain of the Staphylococcus c... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:12167537
Several regions of the repeat domain of the Staphylococcus caprae autolysin, AtlC, are involved in fibronectin binding
|
|
GO:0005515
protein binding
|
IPI
PMID:12421310 Elongation factor Tu and E1 beta subunit of pyruvate dehydro... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:12421310
Elongation factor Tu and E1 beta subunit of pyruvate dehydrogenase complex act as fibronectin binding proteins in Mycoplasma pneumoniae
|
|
GO:0005515
protein binding
|
IPI
PMID:15292204 BBK32, a fibronectin binding MSCRAMM from Borrelia burgdorfe... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:15292204
BBK32, a fibronectin binding MSCRAMM from Borrelia burgdorferi, contains a disordered region that undergoes a conformational change on ligand binding
|
|
GO:0005515
protein binding
|
IPI
PMID:17849409 Identification of novel bacterial plasminogen-binding protei... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:17849409
Interestingly, GlnA1 was able to bind the extracellular matrix (ECM) protein fibronectin
|
|
GO:0005515
protein binding
|
IPI
PMID:19429745 Enolase from Paracoccidioides brasiliensis: isolation and id... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:19429745
Enolase from Paracoccidioides brasiliensis: isolation and identification as a fibronectin-binding protein
|
|
GO:0031012
extracellular matrix
|
IDA
PMID:26571399 A collagen VI-dependent pathogenic mechanism for Hirschsprun... |
ACCEPT |
Summary: Extracellular matrix is the primary localization of fibronectin. Core cellular component annotation.
Reason: This is the most important cellular component annotation for fibronectin. Fibronectin is a major structural constituent of the ECM, assembling into fibrillar networks. Extensively validated across decades of research. This annotation is accurate and represents core fibronectin localization.
Supporting Evidence:
PMID:26571399
This appears to be due to the fact that collagen VI is a poor substratum for supporting eNCC migration and can even interfere with the migration-promo...
|
|
GO:1901166
neural crest cell migration involved in autonomic nervous system development
|
IDA
PMID:26571399 A collagen VI-dependent pathogenic mechanism for Hirschsprun... |
KEEP AS NON CORE |
Summary: Fibronectin mediates neural crest migration for autonomic nervous system development. Specific developmental context.
Reason: This is essentially the same as GO:0048484 but more specific to autonomic nervous system. Experimentally validated (PMID:26571399). Represents specific developmental application of core migration functions. Mark as non-core.
Supporting Evidence:
PMID:26571399
This appears to be due to the fact that collagen VI is a poor substratum for supporting eNCC migration and can even interfere with the migration-promo...
|
|
GO:0008284
positive regulation of cell population proliferation
|
IDA
PMID:25834989 Fibulin1C peptide induces cell attachment and extracellular ... |
KEEP AS NON CORE |
Summary: Fibronectin can promote cell proliferation through integrin signaling. Regulatory function in specific contexts.
Reason: Experimental validation (PMID:25834989) shows fibulin1C peptide induces proliferation via fibronectin interactions. While valid, proliferation regulation is a downstream consequence and context-dependent. Core functions are adhesion and signaling. Mark as non-core.
Supporting Evidence:
PMID:25834989
In addition, FBLN1C1 stimulated fibulin1 deposition in PF and COPD fibroblasts, and augmented fibronectin and perlecan deposition in all three groups
|
|
GO:0005102
signaling receptor binding
|
IDA
PMID:34089617 Blockade of checkpoint ILT3/LILRB4/gp49B binding to fibronec... |
ACCEPT |
Summary: Fibronectin binds signaling receptors including integrins and checkpoint receptors.
Reason: Experimental validation (PMID:34089617) shows fibronectin binds ILT3/LILRB4 checkpoint receptor. Combined with integrin binding, this term accurately captures receptor-binding function. While GO:0005178 (integrin binding) is more specific, this broader term is also valid. Accept.
Supporting Evidence:
PMID:34089617
Blockade of checkpoint ILT3/LILRB4/gp49B binding to fibronectin ameliorates autoimmune disease in BXSB/Yaa mice
|
|
GO:0150102
negative regulation of monocyte activation
|
IDA
PMID:34089617 Blockade of checkpoint ILT3/LILRB4/gp49B binding to fibronec... |
KEEP AS NON CORE |
Summary: Fibronectin modulates monocyte activation through checkpoint receptor interactions.
Reason: Experimental validation (PMID:34089617) in autoimmune disease model. Fibronectin-ILT3 interactions regulate monocyte function. While valid, this represents a specific immunomodulatory function in particular disease contexts. Core function is receptor binding. Mark as non-core.
Supporting Evidence:
PMID:34089617
Blockade of checkpoint ILT3/LILRB4/gp49B binding to fibronectin ameliorates autoimmune disease in BXSB/Yaa mice
|
|
GO:0005886
plasma membrane
|
TAS
Reactome:R-HSA-9700131 |
KEEP AS NON CORE |
Summary: Fibronectin interacts with integrins at the plasma membrane, but fibronectin itself is extracellular.
Reason: These Reactome annotations refer to fibronectin-integrin complexes at cell surfaces. However, fibronectin is an extracellular protein; plasma membrane localization refers to its binding partners (integrins). This is indirect. Additionally, 12 separate annotations for the same term represent over-annotation. Mark as non-core.
Supporting Evidence:
Reactome:R-HSA-9700131
|
|
GO:0005886
plasma membrane
|
TAS
Reactome:R-HSA-9700179 |
KEEP AS NON CORE |
Summary: Fibronectin interacts with integrins at the plasma membrane, but fibronectin itself is extracellular.
Reason: These Reactome annotations refer to fibronectin-integrin complexes at cell surfaces. However, fibronectin is an extracellular protein; plasma membrane localization refers to its binding partners (integrins). This is indirect. Additionally, 12 separate annotations for the same term represent over-annotation. Mark as non-core.
Supporting Evidence:
Reactome:R-HSA-9700179
|
|
GO:0007229
integrin-mediated signaling pathway
|
IDA
PMID:19126672 Spontaneous phosphoinositide 3-kinase signaling dynamics dri... |
ACCEPT |
Summary: Fibronectin-integrin binding triggers signaling cascades. This is a direct consequence of integrin engagement.
Reason: Fibronectin binding to integrins triggers intracellular signaling (FAK, PI3K, MAPK pathways). Experimental validation (PMID:19126672). While downstream of integrin binding, signaling initiation is a direct and important consequence of fibronectin-integrin interactions. Accept.
Supporting Evidence:
PMID:19126672
Spontaneous phosphoinositide 3-kinase signaling dynamics drive spreading and random migration of fibroblasts
|
|
GO:0034446
substrate adhesion-dependent cell spreading
|
IDA
PMID:19126672 Spontaneous phosphoinositide 3-kinase signaling dynamics dri... |
ACCEPT |
Summary: Fibronectin substrates promote cell spreading through integrin engagement. Direct functional consequence.
Reason: Cell spreading on fibronectin substrates is a direct and measurable consequence of integrin-mediated adhesion. Well-validated experimentally (PMID:19126672, PMID:24658351, PMID:16236823). This represents a core adhesive function of fibronectin. Accept.
Supporting Evidence:
PMID:19126672
Spontaneous phosphoinositide 3-kinase signaling dynamics drive spreading and random migration of fibroblasts
|
|
GO:0051897
positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction
|
IDA
PMID:19126672 Spontaneous phosphoinositide 3-kinase signaling dynamics dri... |
ACCEPT |
Summary: Fibronectin-integrin engagement activates PI3K/Akt signaling. Direct signaling consequence.
Reason: Fibronectin binding to integrins triggers PI3K/Akt pathway activation, promoting cell survival and migration. Experimental validation (PMID:19126672). This is a well-established signaling consequence of fibronectin-integrin interactions. Accept.
Supporting Evidence:
PMID:19126672
Spontaneous phosphoinositide 3-kinase signaling dynamics drive spreading and random migration of fibroblasts
|
|
GO:0005201
extracellular matrix structural constituent
|
HDA
PMID:28344315 Proteomic characterization of human multiple myeloma bone ma... |
ACCEPT |
Summary: Fibronectin is a major structural constituent of the ECM, assembling into fibrillar networks that organize matrix architecture.
Reason: This is a core molecular function annotation. Fibronectin provides structural integrity to the ECM through its fibrillar assembly and interactions with other matrix components. This term captures fibronectin's fundamental role as an ECM scaffold protein. Multiple experimental validations (HDA, RCA, ISS evidence codes) support this annotation.
Supporting Evidence:
PMID:28344315
Proteomic characterization of human multiple myeloma bone marrow extracellular matrix
|
|
GO:0005201
extracellular matrix structural constituent
|
RCA
PMID:28327460 Comprehensive proteomic characterization of stem cell-derive... |
ACCEPT |
Summary: Fibronectin is a major structural constituent of the ECM, assembling into fibrillar networks that organize matrix architecture.
Reason: This is a core molecular function annotation. Fibronectin provides structural integrity to the ECM through its fibrillar assembly and interactions with other matrix components. This term captures fibronectin's fundamental role as an ECM scaffold protein. Multiple experimental validations (HDA, RCA, ISS evidence codes) support this annotation.
Supporting Evidence:
PMID:28327460
In the stem-cell niche, the extracellular matrix (ECM) serves as a structural support that additionally provides stem cells with signals that contribu...
|
|
GO:0031012
extracellular matrix
|
HDA
PMID:28327460 Comprehensive proteomic characterization of stem cell-derive... |
ACCEPT |
Summary: Extracellular matrix is fibronectin's primary localization. Accurate HDA annotation.
Reason: High-throughput detection assays confirm fibronectin as an ECM component. While multiple HDA annotations exist, they come from different studies/contexts. ECM is the core localization. Accept but note some redundancy across annotations.
Supporting Evidence:
PMID:28327460
In the stem-cell niche, the extracellular matrix (ECM) serves as a structural support that additionally provides stem cells with signals that contribu...
|
|
GO:0031012
extracellular matrix
|
IDA
PMID:16157329 Sequential deposition of latent TGF-beta binding proteins (L... |
ACCEPT |
Summary: Extracellular matrix is the primary localization of fibronectin. Core cellular component annotation.
Reason: This is the most important cellular component annotation for fibronectin. Fibronectin is a major structural constituent of the ECM, assembling into fibrillar networks. Extensively validated across decades of research. This annotation is accurate and represents core fibronectin localization.
Supporting Evidence:
PMID:16157329
Sequential deposition of latent TGF-beta binding proteins (LTBPs) during formation of the extracellular matrix in human lung fibroblasts
|
|
GO:0043394
proteoglycan binding
|
IDA
PMID:29030641 Lubricin binds cartilage proteins, cartilage oligomeric matr... |
ACCEPT |
Summary: Proteoglycan binding through heparin-binding domains. Core molecular function.
Reason: Fibronectin contains three heparin-binding sites that mediate binding to heparan sulfate proteoglycans. Important for fibronectin matrix assembly and ECM organization. Experimentally validated. Core molecular function. Accept.
Supporting Evidence:
PMID:29030641
Lubricin binds cartilage proteins, cartilage oligomeric matrix protein, fibronectin and collagen II at the cartilage surface
|
|
GO:0031012
extracellular matrix
|
HDA
PMID:28344315 Proteomic characterization of human multiple myeloma bone ma... |
ACCEPT |
Summary: Extracellular matrix is fibronectin's primary localization. Accurate HDA annotation.
Reason: High-throughput detection assays confirm fibronectin as an ECM component. While multiple HDA annotations exist, they come from different studies/contexts. ECM is the core localization. Accept but note some redundancy across annotations.
Supporting Evidence:
PMID:28344315
Proteomic characterization of human multiple myeloma bone marrow extracellular matrix
|
|
GO:0005201
extracellular matrix structural constituent
|
RCA
PMID:28675934 Characterization of the Extracellular Matrix of Normal and D... |
ACCEPT |
Summary: Fibronectin is a major structural constituent of the ECM, assembling into fibrillar networks that organize matrix architecture.
Reason: This is a core molecular function annotation. Fibronectin provides structural integrity to the ECM through its fibrillar assembly and interactions with other matrix components. This term captures fibronectin's fundamental role as an ECM scaffold protein. Multiple experimental validations (HDA, RCA, ISS evidence codes) support this annotation.
Supporting Evidence:
PMID:28675934
Characterization of the Extracellular Matrix of Normal and Diseased Tissues Using Proteomics
|
|
GO:0031012
extracellular matrix
|
HDA
PMID:28675934 Characterization of the Extracellular Matrix of Normal and D... |
ACCEPT |
Summary: Extracellular matrix is fibronectin's primary localization. Accurate HDA annotation.
Reason: High-throughput detection assays confirm fibronectin as an ECM component. While multiple HDA annotations exist, they come from different studies/contexts. ECM is the core localization. Accept but note some redundancy across annotations.
Supporting Evidence:
PMID:28675934
Characterization of the Extracellular Matrix of Normal and Diseased Tissues Using Proteomics
|
|
GO:0005201
extracellular matrix structural constituent
|
RCA
PMID:23979707 SILAC-based proteomics of human primary endothelial cell mor... |
ACCEPT |
Summary: Fibronectin is a major structural constituent of the ECM, assembling into fibrillar networks that organize matrix architecture.
Reason: This is a core molecular function annotation. Fibronectin provides structural integrity to the ECM through its fibrillar assembly and interactions with other matrix components. This term captures fibronectin's fundamental role as an ECM scaffold protein. Multiple experimental validations (HDA, RCA, ISS evidence codes) support this annotation.
Supporting Evidence:
PMID:23979707
By comparing proteomic changes in primary human endothelial cells morphogenesis on matrigel to general adhesion mechanisms in cells spreading on cultu...
|
|
GO:0005201
extracellular matrix structural constituent
|
RCA
PMID:27559042 Glycoproteomics Reveals Decorin Peptides With Anti-Myostatin... |
ACCEPT |
Summary: Fibronectin is a major structural constituent of the ECM, assembling into fibrillar networks that organize matrix architecture.
Reason: This is a core molecular function annotation. Fibronectin provides structural integrity to the ECM through its fibrillar assembly and interactions with other matrix components. This term captures fibronectin's fundamental role as an ECM scaffold protein. Multiple experimental validations (HDA, RCA, ISS evidence codes) support this annotation.
Supporting Evidence:
PMID:27559042
We used proteomics to profile glycoproteins in the human cardiac extracellular matrix (ECM)
|
|
GO:0005201
extracellular matrix structural constituent
|
ISS
GO_REF:0000024 |
ACCEPT |
Summary: Fibronectin is a major structural constituent of the ECM, assembling into fibrillar networks that organize matrix architecture.
Reason: This is a core molecular function annotation. Fibronectin provides structural integrity to the ECM through its fibrillar assembly and interactions with other matrix components. This term captures fibronectin's fundamental role as an ECM scaffold protein. Multiple experimental validations (HDA, RCA, ISS evidence codes) support this annotation.
Supporting Evidence:
GO_REF:0000024
|
|
GO:0005201
extracellular matrix structural constituent
|
RCA
PMID:20551380 Proteomics characterization of extracellular space component... |
ACCEPT |
Summary: Fibronectin is a major structural constituent of the ECM, assembling into fibrillar networks that organize matrix architecture.
Reason: This is a core molecular function annotation. Fibronectin provides structural integrity to the ECM through its fibrillar assembly and interactions with other matrix components. This term captures fibronectin's fundamental role as an ECM scaffold protein. Multiple experimental validations (HDA, RCA, ISS evidence codes) support this annotation.
Supporting Evidence:
PMID:20551380
For instance, we were able to detect matrix metalloproteinase-9 by mass spectrometry and relate its presence to degradation of fibronectin in a clinic...
|
|
GO:0005201
extracellular matrix structural constituent
|
RCA
PMID:25037231 Extracellular matrix signatures of human primary metastatic ... |
ACCEPT |
Summary: Fibronectin is a major structural constituent of the ECM, assembling into fibrillar networks that organize matrix architecture.
Reason: This is a core molecular function annotation. Fibronectin provides structural integrity to the ECM through its fibrillar assembly and interactions with other matrix components. This term captures fibronectin's fundamental role as an ECM scaffold protein. Multiple experimental validations (HDA, RCA, ISS evidence codes) support this annotation.
Supporting Evidence:
PMID:25037231
Extracellular matrix signatures of human primary metastatic colon cancers and their metastases to liver
|
|
GO:0031012
extracellular matrix
|
HDA
PMID:25037231 Extracellular matrix signatures of human primary metastatic ... |
ACCEPT |
Summary: Extracellular matrix is fibronectin's primary localization. Accurate HDA annotation.
Reason: High-throughput detection assays confirm fibronectin as an ECM component. While multiple HDA annotations exist, they come from different studies/contexts. ECM is the core localization. Accept but note some redundancy across annotations.
Supporting Evidence:
PMID:25037231
Extracellular matrix signatures of human primary metastatic colon cancers and their metastases to liver
|
|
GO:0005576
extracellular region
|
HDA
PMID:27068509 Extracellular matrix remodelling in response to venous hyper... |
MODIFY |
Summary: Fibronectin is extracellular, but more specific terms (ECM, extracellular space) are preferable.
Reason: While factually correct, GO:0005576 is too general. Replace with GO:0031012 (extracellular matrix) which better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
PMID:27068509
Extracellular matrix remodelling in response to venous hypertension: proteomics of human varicose veins
|
|
GO:0031012
extracellular matrix
|
HDA
PMID:27559042 Glycoproteomics Reveals Decorin Peptides With Anti-Myostatin... |
ACCEPT |
Summary: Extracellular matrix is fibronectin's primary localization. Accurate HDA annotation.
Reason: High-throughput detection assays confirm fibronectin as an ECM component. While multiple HDA annotations exist, they come from different studies/contexts. ECM is the core localization. Accept but note some redundancy across annotations.
Supporting Evidence:
PMID:27559042
We used proteomics to profile glycoproteins in the human cardiac extracellular matrix (ECM)
|
|
GO:0005615
extracellular space
|
HDA
PMID:20551380 Proteomics characterization of extracellular space component... |
ACCEPT |
Summary: Fibronectin is secreted into extracellular space. Core localization annotation.
Reason: Fibronectin is a secreted protein localizing to extracellular space. Both plasma fibronectin (soluble in body fluids) and cellular fibronectin (assembled into ECM) occupy extracellular space. Appropriate cellular component annotation.
Supporting Evidence:
PMID:20551380
For instance, we were able to detect matrix metalloproteinase-9 by mass spectrometry and relate its presence to degradation of fibronectin in a clinic...
|
|
GO:0031012
extracellular matrix
|
HDA
PMID:20551380 Proteomics characterization of extracellular space component... |
ACCEPT |
Summary: Extracellular matrix is fibronectin's primary localization. Accurate HDA annotation.
Reason: High-throughput detection assays confirm fibronectin as an ECM component. While multiple HDA annotations exist, they come from different studies/contexts. ECM is the core localization. Accept but note some redundancy across annotations.
Supporting Evidence:
PMID:20551380
For instance, we were able to detect matrix metalloproteinase-9 by mass spectrometry and relate its presence to degradation of fibronectin in a clinic...
|
|
GO:0031012
extracellular matrix
|
ISS
PMID:22261194 Proteomics analysis of cardiac extracellular matrix remodeli... |
ACCEPT |
Summary: Extracellular matrix is the primary localization of fibronectin. Core cellular component annotation.
Reason: This is the most important cellular component annotation for fibronectin. Fibronectin is a major structural constituent of the ECM, assembling into fibrillar networks. Extensively validated across decades of research. This annotation is accurate and represents core fibronectin localization.
Supporting Evidence:
PMID:22261194
Proteomics analysis of cardiac extracellular matrix remodeling in a porcine model of ischemia/reperfusion injury
|
|
GO:0031012
extracellular matrix
|
HDA
PMID:23979707 SILAC-based proteomics of human primary endothelial cell mor... |
ACCEPT |
Summary: Extracellular matrix is fibronectin's primary localization. Accurate HDA annotation.
Reason: High-throughput detection assays confirm fibronectin as an ECM component. While multiple HDA annotations exist, they come from different studies/contexts. ECM is the core localization. Accept but note some redundancy across annotations.
Supporting Evidence:
PMID:23979707
By comparing proteomic changes in primary human endothelial cells morphogenesis on matrigel to general adhesion mechanisms in cells spreading on cultu...
|
|
GO:1904237
positive regulation of substrate-dependent cell migration, cell attachment to substrate
|
IDA
PMID:25834989 Fibulin1C peptide induces cell attachment and extracellular ... |
ACCEPT |
Summary: Fibronectin promotes cell migration and attachment. Direct functional consequence.
Reason: Experimental validation (PMID:25834989). Fibronectin directly mediates cell attachment and promotes migration. While this term is somewhat redundant with 'cell adhesion' and 'cell-matrix adhesion', it accurately captures a direct functional consequence. Accept.
Supporting Evidence:
PMID:25834989
In addition, FBLN1C1 stimulated fibulin1 deposition in PF and COPD fibroblasts, and augmented fibronectin and perlecan deposition in all three groups
|
|
GO:0005515
protein binding
|
IPI
PMID:10788510 The fibronectin-binding MSCRAMM FnbpA of Staphylococcus aure... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:10788510
The fibronectin-binding MSCRAMM FnbpA of Staphylococcus aureus is a bifunctional protein that also binds to fibrinogen
|
|
GO:0051702
biological process involved in interaction with symbiont
|
IDA
PMID:12167537 Several regions of the repeat domain of the Staphylococcus c... |
KEEP AS NON CORE |
Summary: Fibronectin serves as an adhesion target for bacterial pathogens. Host-pathogen interaction context.
Reason: Multiple experimental validations (PMID:12167537, PMID:19429745, PMID:12421310) show bacterial pathogens bind fibronectin. While biologically important, this represents pathogen exploitation of fibronectin's adhesive properties. Not a core host function but rather pathogen binding to ECM. Mark as non-core.
Supporting Evidence:
PMID:12167537
Several regions of the repeat domain of the Staphylococcus caprae autolysin, AtlC, are involved in fibronectin binding
|
|
GO:0005515
protein binding
|
IPI
PMID:16677310 Mycobacterium tuberculosis malate synthase is a laminin-bind... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:16677310
tb malate synthase (MS) has adapted to function as an adhesin which binds to laminin and fibronectin
|
|
GO:0051702
biological process involved in interaction with symbiont
|
IDA
PMID:19429745 Enolase from Paracoccidioides brasiliensis: isolation and id... |
KEEP AS NON CORE |
Summary: Fibronectin serves as an adhesion target for bacterial pathogens. Host-pathogen interaction context.
Reason: Multiple experimental validations (PMID:12167537, PMID:19429745, PMID:12421310) show bacterial pathogens bind fibronectin. While biologically important, this represents pathogen exploitation of fibronectin's adhesive properties. Not a core host function but rather pathogen binding to ECM. Mark as non-core.
Supporting Evidence:
PMID:19429745
Enolase from Paracoccidioides brasiliensis: isolation and identification as a fibronectin-binding protein
|
|
GO:0005515
protein binding
|
IPI
PMID:19220903 Surface displaced alfa-enolase of Lactobacillus plantarum is... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:19220903
Surface displaced alfa-enolase of Lactobacillus plantarum is a fibronectin binding protein
|
|
GO:0051702
biological process involved in interaction with symbiont
|
IDA
PMID:12421310 Elongation factor Tu and E1 beta subunit of pyruvate dehydro... |
KEEP AS NON CORE |
Summary: Fibronectin serves as an adhesion target for bacterial pathogens. Host-pathogen interaction context.
Reason: Multiple experimental validations (PMID:12167537, PMID:19429745, PMID:12421310) show bacterial pathogens bind fibronectin. While biologically important, this represents pathogen exploitation of fibronectin's adhesive properties. Not a core host function but rather pathogen binding to ECM. Mark as non-core.
Supporting Evidence:
PMID:12421310
Elongation factor Tu and E1 beta subunit of pyruvate dehydrogenase complex act as fibronectin binding proteins in Mycoplasma pneumoniae
|
|
GO:0001755
neural crest cell migration
|
IDA
PMID:26571399 A collagen VI-dependent pathogenic mechanism for Hirschsprun... |
KEEP AS NON CORE |
Summary: Fibronectin mediates neural crest cell migration during development. Specific developmental context.
Reason: Experimentally validated (PMID:26571399) - neural crest cells migrate along fibronectin-rich pathways. However, this represents a specific developmental context. The core function is ECM-mediated cell adhesion and migration. Mark as non-core.
Supporting Evidence:
PMID:26571399
This appears to be due to the fact that collagen VI is a poor substratum for supporting eNCC migration and can even interfere with the migration-promo...
|
|
GO:0048484
enteric nervous system development
|
IDA
PMID:26571399 A collagen VI-dependent pathogenic mechanism for Hirschsprun... |
KEEP AS NON CORE |
Summary: Fibronectin supports enteric nervous system development through neural crest cell migration. Specific developmental context.
Reason: Experimentally validated (PMID:26571399) in Hirschsprung's disease model. Fibronectin provides migration substrate for enteric neural crest cells. However, this is a specific developmental context. Core function is ECM organization and cell migration support. Mark as non-core.
Supporting Evidence:
PMID:26571399
This appears to be due to the fact that collagen VI is a poor substratum for supporting eNCC migration and can even interfere with the migration-promo...
|
|
GO:0005515
protein binding
|
IPI
PMID:26627825 Extracellular Fibrinogen-binding Protein (Efb) from Staphylo... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:26627825
2015 Dec 1. Extracellular Fibrinogen-binding Protein (Efb) from Staphylococcus aureus Inhibits the Formation of Platelet-Leukocyte Complexes.
|
|
GO:0001932
regulation of protein phosphorylation
|
IDA
PMID:11792823 Fibulin-1 suppression of fibronectin-regulated cell adhesion... |
ACCEPT |
Summary: Fibronectin-integrin interactions regulate protein phosphorylation through FAK and other kinases.
Reason: Fibronectin binding triggers phosphorylation cascades via FAK, Src, and downstream kinases. Experimental validation (PMID:11792823). This is a direct consequence of integrin engagement. Accept.
Supporting Evidence:
PMID:11792823
Fibulin-1 suppression of fibronectin-regulated cell adhesion and motility
|
|
GO:0010628
positive regulation of gene expression
|
IDA
PMID:25834989 Fibulin1C peptide induces cell attachment and extracellular ... |
KEEP AS NON CORE |
Summary: Fibronectin-integrin signaling can regulate gene expression. Indirect regulatory function.
Reason: Experimental validation (PMID:25834989). Fibronectin signaling influences gene expression through downstream pathways. However, this is an indirect effect. Core functions are receptor binding and signaling initiation. Mark as non-core.
Supporting Evidence:
PMID:25834989
In addition, FBLN1C1 stimulated fibulin1 deposition in PF and COPD fibroblasts, and augmented fibronectin and perlecan deposition in all three groups
|
|
GO:0048146
positive regulation of fibroblast proliferation
|
IDA
PMID:25834989 Fibulin1C peptide induces cell attachment and extracellular ... |
KEEP AS NON CORE |
Summary: Fibronectin promotes fibroblast proliferation. Cell-type-specific regulatory function.
Reason: Experimental validation (PMID:25834989). Fibronectin supports fibroblast proliferation through integrin signaling. However, this is a cell-type-specific regulatory function. Core functions are adhesion and receptor engagement. Mark as non-core.
Supporting Evidence:
PMID:25834989
In addition, FBLN1C1 stimulated fibulin1 deposition in PF and COPD fibroblasts, and augmented fibronectin and perlecan deposition in all three groups
|
|
GO:0071635
negative regulation of transforming growth factor beta production
|
IDA
PMID:25834989 Fibulin1C peptide induces cell attachment and extracellular ... |
KEEP AS NON CORE |
Summary: Fibronectin can modulate TGF-beta production. Context-specific regulatory function.
Reason: Experimental validation (PMID:25834989). Fibronectin interactions negatively regulate TGF-beta production in fibrosis context. However, this is a specific regulatory function in particular disease contexts. Core functions are ECM organization and receptor binding. Mark as non-core.
Supporting Evidence:
PMID:25834989
In addition, FBLN1C1 stimulated fibulin1 deposition in PF and COPD fibroblasts, and augmented fibronectin and perlecan deposition in all three groups
|
|
GO:0005178
integrin binding
|
IPI
PMID:11792823 Fibulin-1 suppression of fibronectin-regulated cell adhesion... |
ACCEPT |
Summary: Integrin binding is a core molecular function mediated by RGD motif and other sites.
Reason: Fibronectin's RGD motif in FN-III10 binds integrin alpha5beta1. Additional sites engage alpha4beta1, alphaVbeta3, and others. Extensively validated by structural and biochemical studies. Core function. Accept.
Supporting Evidence:
PMID:11792823
Fibulin-1 suppression of fibronectin-regulated cell adhesion and motility
|
|
GO:0070372
regulation of ERK1 and ERK2 cascade
|
IDA
PMID:11792823 Fibulin-1 suppression of fibronectin-regulated cell adhesion... |
ACCEPT |
Summary: Fibronectin-integrin interactions regulate ERK signaling. Direct signaling consequence.
Reason: Fibronectin engagement regulates ERK1/2 MAPK cascade through integrin-FAK-MAPK pathway. Experimental validation (PMID:11792823). Well-established signaling consequence. Accept.
Supporting Evidence:
PMID:11792823
Fibulin-1 suppression of fibronectin-regulated cell adhesion and motility
|
|
GO:0005515
protein binding
|
IPI
PMID:9278415 The self-association and fibronectin-binding sites of fibuli... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:9278415
The self-association and fibronectin-binding sites of fibulin-1 map to calcium-binding epidermal growth factor-like domains
|
|
GO:0005515
protein binding
|
IPI
PMID:1400330 Fibulin binds to itself and to the carboxyl-terminal heparin... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:1400330
Fibulin binds to itself and to the carboxyl-terminal heparin-binding region of fibronectin
|
|
GO:0005515
protein binding
|
IPI
PMID:10627046 The PE-PGRS glycine-rich proteins of Mycobacterium tuberculo... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:10627046
The PE-PGRS glycine-rich proteins of Mycobacterium tuberculosis: a new family of fibronectin-binding proteins
|
|
GO:0005515
protein binding
|
IPI
PMID:3141278 Characterization of fibronectin-binding antigens released by... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:3141278
Characterization of fibronectin-binding antigens released by Mycobacterium tuberculosis and Mycobacterium bovis BCG
|
|
GO:0031012
extracellular matrix
|
IDA
PMID:1632457 Plasminogen activator inhibitor-1 deposition in the extracel... |
ACCEPT |
Summary: Extracellular matrix is the primary localization of fibronectin. Core cellular component annotation.
Reason: This is the most important cellular component annotation for fibronectin. Fibronectin is a major structural constituent of the ECM, assembling into fibrillar networks. Extensively validated across decades of research. This annotation is accurate and represents core fibronectin localization.
Supporting Evidence:
PMID:1632457
Plasminogen activator inhibitor-1 deposition in the extracellular matrix of cultured human mesangial cells
|
|
GO:0005178
integrin binding
|
IMP
PMID:24658351 Structural basis for pure antagonism of integrin αVβ3 by a h... |
ACCEPT |
Summary: Integrin binding is a core molecular function mediated by RGD motif and other sites.
Reason: Fibronectin's RGD motif in FN-III10 binds integrin alpha5beta1. Additional sites engage alpha4beta1, alphaVbeta3, and others. Extensively validated by structural and biochemical studies. Core function. Accept.
Supporting Evidence:
PMID:24658351
Structural basis for pure antagonism of integrin αVβ3 by a high-affinity form of fibronectin
|
|
GO:0033622
integrin activation
|
IMP
PMID:24658351 Structural basis for pure antagonism of integrin αVβ3 by a h... |
ACCEPT |
Summary: Fibronectin binding can induce integrin activation (inside-out signaling). Well-validated function.
Reason: Fibronectin engagement can promote integrin activation and conformational changes that enhance ligand binding. Experimental validation (PMID:24658351). This is a well-characterized aspect of integrin-fibronectin interactions. Accept.
Supporting Evidence:
PMID:24658351
Structural basis for pure antagonism of integrin αVβ3 by a high-affinity form of fibronectin
|
|
GO:0034446
substrate adhesion-dependent cell spreading
|
IMP
PMID:24658351 Structural basis for pure antagonism of integrin αVβ3 by a h... |
ACCEPT |
Summary: Fibronectin substrates promote cell spreading through integrin engagement. Direct functional consequence.
Reason: Cell spreading on fibronectin substrates is a direct and measurable consequence of integrin-mediated adhesion. Well-validated experimentally (PMID:19126672, PMID:24658351, PMID:16236823). This represents a core adhesive function of fibronectin. Accept.
Supporting Evidence:
PMID:24658351
Structural basis for pure antagonism of integrin αVβ3 by a high-affinity form of fibronectin
|
|
GO:0035987
endodermal cell differentiation
|
IDA
PMID:23154389 Regulation of endodermal differentiation of human embryonic ... |
KEEP AS NON CORE |
Summary: Fibronectin-integrin interactions regulate endodermal differentiation in ES cells. Specific developmental context.
Reason: Experimental validation (PMID:23154389) in human embryonic stem cells. Fibronectin-ECM interactions regulate differentiation. However, this represents a specific developmental context. Core functions are ECM organization and integrin binding. Mark as non-core.
Supporting Evidence:
PMID:23154389
From this screen we identified fibronectin (FN) and vitronectin (VTN) as ECMP components that promoted DE differentiation
|
|
GO:0070062
extracellular exosome
|
HDA
PMID:23533145 In-depth proteomic analyses of exosomes isolated from expres... |
KEEP AS NON CORE |
Summary: Fibronectin is found in extracellular exosomes. Minor localization annotation.
Reason: Multiple proteomic studies (PMID:23533145, PMID:21276792, PMID:19056867) detect fibronectin in exosomes. While valid, exosomes represent a minor and specialized localization compared to ECM and extracellular space. This is peripheral to core fibronectin biology. Mark as non-core.
Supporting Evidence:
PMID:23533145
2013 Apr 23. In-depth proteomic analyses of exosomes isolated from expressed prostatic secretions in urine.
|
|
GO:0070062
extracellular exosome
|
IDA
PMID:21276792 Morphologic and proteomic characterization of exosomes relea... |
KEEP AS NON CORE |
Summary: Fibronectin is found in extracellular exosomes. Minor localization annotation.
Reason: Multiple proteomic studies (PMID:23533145, PMID:21276792, PMID:19056867) detect fibronectin in exosomes. While valid, exosomes represent a minor and specialized localization compared to ECM and extracellular space. This is peripheral to core fibronectin biology. Mark as non-core.
Supporting Evidence:
PMID:21276792
Epub 2011 Jan 26. Morphologic and proteomic characterization of exosomes released by cultured extravillous trophoblast cells.
|
|
GO:0005515
protein binding
|
IPI
PMID:11773026 In vitro localization of TIGR/MYOC in trabecular meshwork ex... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:11773026
In vitro localization of TIGR/MYOC in trabecular meshwork extracellular matrix and binding to fibronectin
|
|
GO:0002020
protease binding
|
IPI
PMID:22952693 Cleavage of nidogen-1 by cathepsin S impairs its binding to ... |
ACCEPT |
Summary: Fibronectin binds and is cleaved by proteases. Valid molecular interaction.
Reason: Experimental validation (PMID:22952693). Fibronectin binds various proteases including cathepsins and MMPs, and is a substrate for proteolytic remodeling. While somewhat general, this represents real molecular interactions important for ECM remodeling. Accept.
Supporting Evidence:
PMID:22952693
Cleavage of nidogen-1 by cathepsin S impairs its binding to basement membrane partners.
|
|
GO:0072562
blood microparticle
|
HDA
PMID:22516433 Proteomic analysis of microvesicles from plasma of healthy d... |
KEEP AS NON CORE |
Summary: Fibronectin detected in blood microparticles. Minor localization annotation.
Reason: Proteomic analysis (PMID:22516433) detects fibronectin in blood microparticles. While valid, this represents a minor and specialized localization. Plasma fibronectin is the relevant pool, microparticles are peripheral. Mark as non-core.
Supporting Evidence:
PMID:22516433
Epub 2012 Apr 10. Proteomic analysis of microvesicles from plasma of healthy donors reveals high individual variability.
|
|
GO:0070062
extracellular exosome
|
HDA
PMID:19056867 Large-scale proteomics and phosphoproteomics of urinary exos... |
KEEP AS NON CORE |
Summary: Fibronectin is found in extracellular exosomes. Minor localization annotation.
Reason: Multiple proteomic studies (PMID:23533145, PMID:21276792, PMID:19056867) detect fibronectin in exosomes. While valid, exosomes represent a minor and specialized localization compared to ECM and extracellular space. This is peripheral to core fibronectin biology. Mark as non-core.
Supporting Evidence:
PMID:19056867
2008 Dec 3. Large-scale proteomics and phosphoproteomics of urinary exosomes.
|
|
GO:0005178
integrin binding
|
IDA
PMID:19738201 Proteomic analysis of integrin-associated complexes identifi... |
ACCEPT |
Summary: Integrin binding is a core molecular function mediated by RGD motif and other sites.
Reason: Fibronectin's RGD motif in FN-III10 binds integrin alpha5beta1. Additional sites engage alpha4beta1, alphaVbeta3, and others. Extensively validated by structural and biochemical studies. Core function. Accept.
Supporting Evidence:
PMID:19738201
Quantitative, comparative analyses of the proteomes of two receptor-ligand pairs, alpha(4)beta(1)-vascular cell adhesion molecule-1 and alpha(5)beta(1...
|
|
GO:0005515
protein binding
|
IPI
PMID:16336961 A novel role for fibronectin type I domain in the regulation... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:16336961
A novel role for fibronectin type I domain in the regulation of human hematopoietic cell adhesiveness through binding to follistatin domains of FLRG a...
|
|
GO:0005515
protein binding
|
IPI
PMID:12225811 Matrix-matrix interaction of cartilage oligomeric matrix pro... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:12225811
Matrix-matrix interaction of cartilage oligomeric matrix protein and fibronectin
|
|
GO:0034446
substrate adhesion-dependent cell spreading
|
IDA
PMID:16236823 Laminin-10 and Lutheran blood group glycoproteins in adhesio... |
ACCEPT |
Summary: Fibronectin substrates promote cell spreading through integrin engagement. Direct functional consequence.
Reason: Cell spreading on fibronectin substrates is a direct and measurable consequence of integrin-mediated adhesion. Well-validated experimentally (PMID:19126672, PMID:24658351, PMID:16236823). This represents a core adhesive function of fibronectin. Accept.
Supporting Evidence:
PMID:16236823
Field emission scanning electron microscopy and immunohistochemistry showed that the endothelial cells spread on laminin-10 and formed fibronectin-pos...
|
|
GO:0005577
fibrinogen complex
|
IDA
PMID:3997886 Incorporation of thrombospondin into fibrin clots. |
ACCEPT |
Summary: Fibronectin binds fibrin/fibrinogen forming complexes important for provisional matrix and wound healing.
Reason: Fibronectin contains fibrin-binding sites at N-terminal and C-terminal regions. Interaction with fibrin(ogen) is critical for provisional matrix formation during hemostasis and wound healing. Experimentally validated. Core molecular interaction. Accept.
Supporting Evidence:
PMID:3997886
In contrast, incorporation of 125I-fibronectin into clots was dependent upon cross-linking
|
|
GO:0005515
protein binding
|
IPI
PMID:11956183 The type XIII collagen ectodomain is a 150-nm rod and capabl... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:11956183
The type XIII collagen ectodomain is a 150-nm rod and capable of binding to fibronectin, nidogen-2, perlecan, and heparin
|
|
GO:0005515
protein binding
|
IPI
PMID:15165854 Molecular structure and interaction of recombinant human typ... |
REMOVE |
Summary: This annotation documents a protein-protein interaction but uses the uninformative term 'protein binding'.
Reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too vague. While fibronectin binds many proteins (collagens, integrins, bacterial adhesins, ECM components), these should use more specific terms like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or 'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular function annotations.
Supporting Evidence:
PMID:15165854
Recombinant collagen XVI interacts with fibrillin-1 and with fibronectin indicating multiple molecular interactions in which this ubiquitously express...
|
|
GO:0005793
endoplasmic reticulum-Golgi intermediate compartment
|
IDA
PMID:15308636 Proteomics of endoplasmic reticulum-Golgi intermediate compa... |
ACCEPT |
Summary: Fibronectin transits through ERGIC during secretion. Minor but accurate localization.
Reason: As a secreted glycoprotein, fibronectin traffics through ERGIC during secretion. Experimental evidence (PMID:15308636). While transient rather than functional location, it is accurate for the secretory pathway. Accept.
Supporting Evidence:
PMID:15308636
2004 Aug 11. Proteomics of endoplasmic reticulum-Golgi intermediate compartment (ERGIC) membranes from brefeldin A-treated HepG2 cells identifies ERGIC-32, a new cycling protein that interacts with human Erv46.
|
|
GO:0005576
extracellular region
|
NAS
PMID:14718574 The human plasma proteome: a nonredundant list developed by ... |
MODIFY |
Summary: Fibronectin is extracellular, but more specific terms (ECM, extracellular space) are preferable.
Reason: While factually correct, GO:0005576 is too general. Replace with GO:0031012 (extracellular matrix) which better captures fibronectin's structural role as an ECM component.
Proposed replacements:
extracellular matrix
Supporting Evidence:
PMID:14718574
Epub 2004 Jan 12. The human plasma proteome: a nonredundant list developed by combination of four separate sources.
|
|
GO:0005518
collagen binding
|
NAS
PMID:3024962 Mapping the collagen-binding site of human fibronectin by ex... |
ACCEPT |
Summary: Collagen binding is a core molecular function of fibronectin mediated by gelatin-binding domains.
Reason: Fibronectin binds collagen types I-V and VII through gelatin-binding domains (FN-II repeats). This interaction organizes collagen fibrils and is essential for ECM architecture. Extensively validated (PMID:3024962 NAS and multiple other studies). Core molecular function.
Supporting Evidence:
PMID:3024962
Mapping the collagen-binding site of human fibronectin by expression in Escherichia coli
|
|
GO:0007155
cell adhesion
|
NAS
PMID:1423622 The three-dimensional structure of the tenth type III module... |
ACCEPT |
Summary: Cell adhesion is a core function of fibronectin mediating attachment to ECM.
Reason: Cell adhesion is a quintessential fibronectin function. Through integrin binding, fibronectin mediates cell attachment, spreading, and migration. NAS evidence from PMID:1423622 (structural study of RGD domain). Core function. Accept.
Supporting Evidence:
PMID:1423622
The three-dimensional structure of the tenth type III module of fibronectin: an insight into RGD-mediated interactions
|
|
GO:0008201
heparin binding
|
NAS
PMID:10075919 Crystal structure of a heparin- and integrin-binding segment... |
ACCEPT |
Summary: Heparin binding through three distinct heparin-binding domains. Core molecular function.
Reason: Fibronectin contains three heparin-binding sites (Hep I, II, III). Extensively characterized structurally and functionally (PMID:10075919 NAS). Important for matrix assembly and ECM organization. Core molecular function. Accept.
Supporting Evidence:
PMID:10075919
Crystal structure of a heparin- and integrin-binding segment of human fibronectin
|
|
GO:0009611
response to wounding
|
NAS
PMID:7989369 Further characterization of the NH2-terminal fibrin-binding ... |
KEEP AS NON CORE |
Summary: Fibronectin participates in wound healing through provisional matrix formation. Specific physiological context.
Reason: Fibronectin is essential for wound healing, forming provisional matrix and supporting cell migration. NAS evidence (PMID:7989369) characterizing fibrin-binding sites. However, wound healing represents a specific physiological context. Core functions are fibrin binding and ECM organization. Mark as non-core.
Supporting Evidence:
PMID:7989369
Further characterization of the NH2-terminal fibrin-binding site on fibronectin
|
|
GO:0030198
extracellular matrix organization
|
NAS | NEW |
Summary: Added to align core_functions with existing annotations.
Reason: Core function term not present in existing_annotations.
Supporting Evidence:
file:human/FN1/FN1-uniprot.txt
Fibronectin binds collagen types I-V and VII, assembling into fibrillar networks
|
|
GO:0070051
fibrinogen binding
|
NAS | NEW |
Summary: Added to align core_functions with existing annotations.
Reason: Core function term not present in existing_annotations.
Supporting Evidence:
PMID:7989369
Characterization of the NH2-terminal fibrin-binding site on fibronectin
|
|
GO:0007596
blood coagulation
|
NAS | NEW |
Summary: Added to align core_functions with existing annotations.
Reason: Core function term not present in existing_annotations.
Supporting Evidence:
PMID:7989369
Characterization of the NH2-terminal fibrin-binding site on fibronectin
|
provider: falcon
model: Edison Scientific Literature
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start_time: '2026-03-06T03:10:36.226758'
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template_file: templates/gene_research_go_focused.md
template_variables:
organism: human
gene_id: FN1
gene_symbol: FN1
uniprot_accession: P02751
protein_description: 'RecName: Full=Fibronectin {ECO:0000305}; Short=FN; AltName:
Full=Cold-insoluble globulin; Short=CIG; Contains: RecName: Full=Anastellin; Contains:
RecName: Full=Ugl-Y1; Contains: RecName: Full=Ugl-Y2; Contains: RecName: Full=Ugl-Y3;
Flags: Precursor;'
gene_info: Name=FN1 {ECO:0000312|HGNC:HGNC:3778}; Synonyms=FN;
organism_full: Homo sapiens (Human).
protein_family: Not specified in UniProt
protein_domains: ECM_Regulatory_Proteins. (IPR050991); Fibronectin_type1. (IPR000083);
FN3_dom. (IPR003961); FN3_sf. (IPR036116); FN_type2_dom. (IPR000562)
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BEFORE YOU BEGIN RESEARCH: You MUST verify you are researching the CORRECT gene/protein. Gene symbols can be ambiguous, especially for less well-characterized genes from non-model organisms.
DO NOT PROCEED WITH RESEARCH ON A DIFFERENT GENE. Instead:
- State clearly: "The gene symbol 'FN1' is ambiguous or literature is limited for this specific protein"
- Explain what you found (e.g., "Found extensive literature on a different gene with the same symbol in a different organism")
- Describe the protein based ONLY on the UniProt information provided above
- Suggest that the protein function can be inferred from domain/family information
Please provide a comprehensive research report on the gene FN1 (gene ID: FN1, UniProt: P02751) in human.
The research report should be a detailed narrative explaining the function, biological processes, and localization of the gene product. Citations should be given for all claims.
You should prioritize authoritative reviews and primary scientific literature when conducting research. You can supplement
this with annotations you find in gene/protein databases, but these can be outdated or inaccurate.
We are specifically interested in the primary function of the gene - for enzymes, what reaction is catalyzed, and what is the substrate specificity? For transporters, what is the substrate? For structural proteins or adapters, what is the broader structural role? For signaling molecules, what is the role in the pathway.
We are interested in where in or outside the cell the gene product carries out its function.
We are also interested in the signaling or biochemical pathways in which the gene functions. We are less interested in broad pleiotropic effects, except where these elucidate the precise role.
Include evidence where possible. We are interested in both experimental evidence as well as inference from structure, evolution, or bioinformatic analysis. Precise studies should be prioritized over high-throughput, where available.
Question: You are an expert researcher providing comprehensive, well-cited information.
Provide detailed information focusing on:
1. Key concepts and definitions with current understanding
2. Recent developments and latest research (prioritize 2023-2024 sources)
3. Current applications and real-world implementations
4. Expert opinions and analysis from authoritative sources
5. Relevant statistics and data from recent studies
Format as a comprehensive research report with proper citations. Include URLs and publication dates where available.
Always prioritize recent, authoritative sources and provide specific citations for all major claims.
BEFORE YOU BEGIN RESEARCH: You MUST verify you are researching the CORRECT gene/protein. Gene symbols can be ambiguous, especially for less well-characterized genes from non-model organisms.
DO NOT PROCEED WITH RESEARCH ON A DIFFERENT GENE. Instead:
- State clearly: "The gene symbol 'FN1' is ambiguous or literature is limited for this specific protein"
- Explain what you found (e.g., "Found extensive literature on a different gene with the same symbol in a different organism")
- Describe the protein based ONLY on the UniProt information provided above
- Suggest that the protein function can be inferred from domain/family information
Please provide a comprehensive research report on the gene FN1 (gene ID: FN1, UniProt: P02751) in human.
The research report should be a detailed narrative explaining the function, biological processes, and localization of the gene product. Citations should be given for all claims.
You should prioritize authoritative reviews and primary scientific literature when conducting research. You can supplement
this with annotations you find in gene/protein databases, but these can be outdated or inaccurate.
We are specifically interested in the primary function of the gene - for enzymes, what reaction is catalyzed, and what is the substrate specificity? For transporters, what is the substrate? For structural proteins or adapters, what is the broader structural role? For signaling molecules, what is the role in the pathway.
We are interested in where in or outside the cell the gene product carries out its function.
We are also interested in the signaling or biochemical pathways in which the gene functions. We are less interested in broad pleiotropic effects, except where these elucidate the precise role.
Include evidence where possible. We are interested in both experimental evidence as well as inference from structure, evolution, or bioinformatic analysis. Precise studies should be prioritized over high-throughput, where available.
The UniProt accession P02751 corresponds to human fibronectin (FN1), a large extracellular matrix (ECM) glycoprotein that exists as a disulfide-linked dimer (~230ā270 kDa subunits) and is found as both soluble plasma fibronectin (pFN) and insoluble fibrillar cellular fibronectin (cFN) in the ECM. This identity and these defining features are explicitly described in recent literature, and are consistent with canonical FN1 biology and domain organization. (guerrerobarbera2024shapingoncogenicmicroenvironments pages 1-2)
A recent authoritative review defines the ECM as a meshwork of proteins and glycans that provides a scaffold around cells and exists in two broad structural forms: basement membranes and interstitial ECM. ECM composition and assembly are dynamic and regulated by biosynthesis/trafficking, enzymatic modification and crosslinking, and proteolysis; ECM signals are transduced by cell-surface receptors including integrins. Quantitatively, this review summarizes that the āmatrisomeā comprises nearly ~300 structural ECM genes and ~700 modulators, and that tissues contain well over 200 distinct matrisome components. (naba2024mechanismsofassembly pages 1-3)
Fibronectinās biological specificity is largely encoded by its modular domains and embedded short motifs. A 2024 review focused on cancer microenvironments highlights that fibronectin contains multiple modules (type I/II/III repeats) and that key cell-binding motifs include RGD and a synergy site (in FNIII modules), while additional regions bind heparin/heparan sulfate and syndecans. These domain-level features create a multifunctional ECM scaffold that supports adhesion and signaling. (guerrerobarbera2024shapingoncogenicmicroenvironments pages 1-2, guerrerobarbera2024shapingoncogenicmicroenvironments media 3a113e65)
FN1 generates multiple isoforms via alternative splicing, notably inclusion/exclusion of EDA (EIIIA), EDB (EIIIB), and variation in the IIICS (V) region. These spliced segments are central to developmental programs and are re-expressed in remodeling and disease contexts (e.g., fibrosis, cancer), enabling isoform-specific targeting strategies. (lemanskaperek2024changesinvarious pages 12-12, maddali2023inductionofproinflammatory pages 17-18)
Fibronectinās primary role is as a cell-adhesive ECM glycoprotein that forms fibrillar networks and functions as a scaffold to organize other ECM components and associated signaling molecules. In tumors, fibronectin-rich ECM is described as a major stromal constituent that supports tissue mechanical architecture and signaling; it is frequently produced by stromal fibroblasts (e.g., CAFs) alongside collagen. (guerrerobarbera2024shapingoncogenicmicroenvironments pages 1-2)
Fibronectin is secreted and functions extracellularly as either:
- Plasma fibronectin (pFN): soluble, circulating form; and
- Cellular fibronectin (cFN): assembled into insoluble, fibrillar ECM networks. (guerrerobarbera2024shapingoncogenicmicroenvironments pages 1-2, lemanskaperek2024changesinvarious pages 1-2)
A recent mechanistic synthesis describes fibronectin fibrillogenesis as a cell-mediated, stepwise process:
1) Binding of folded fibronectin dimers to heterodimeric integrins at the cell surface.
2) Force-dependent conformational change/stretching of fibronectin driven by cell contractility.
3) End-to-end intermolecular interactions between fibronectin dimers.
4) Lateral extension of fibrils into arrays.
This review also notes that early assembly depends on heparan sulfate interactions (including a specific FNIII module involvement) and that transglutaminase 2 (TGM2/TG2) can facilitate early fibronectināintegrin interactions, reinforcing assembly. (naba2024mechanismsofassembly pages 13-14, naba2024mechanismsofassembly pages 37-42)
A complementary 2023 primary study reiterates the core mechanistic concept: fibronectin is secreted as a soluble dimer and binds primarily to integrin α5β1; actomyosin forces transmitted via integrins stretch fibronectin, exposing fibronectināfibronectin binding sites that drive fibrillogenesis. (sofroniou2023differentialregulationof pages 1-3)
Evidence from 2024 reviews indicates:
- Integrins (notably α5β1) are central receptors for fibronectin binding and fibrillogenesis. (sofroniou2023differentialregulationof pages 1-3, naba2024mechanismsofassembly pages 37-42)
- Syndecans serve as additional receptors, with fibronectin binding to syndecans contributing to adhesion/mechanoregulation. (guerrerobarbera2024shapingoncogenicmicroenvironments pages 1-2, naba2024mechanismsofassembly pages 37-42)
- Heparan sulfate/heparin interactions are implicated in early fibril formation (nucleation and nascent fibril formation). (naba2024mechanismsofassembly pages 13-14, naba2024mechanismsofassembly pages 29-30)
- Fibronectin fibrils template assembly of other ECM networks, including collagen fibers and fibrillin microfibrils. (naba2024mechanismsofassembly pages 29-30, naba2024mechanismsofassembly pages 37-42)
Figure-based evidence: A 2024 schematic explicitly maps fibronectinās domain architecture and binding partners (integrins, syndecans, heparin, collagen and others), linking specific motifs/domains (e.g., RGD, synergy) to receptor interactions and downstream functions. (guerrerobarbera2024shapingoncogenicmicroenvironments media 3a113e65)
A 2023 study highlights fibronectin fibrils as growth-factor-binding scaffolds, noting binding of numerous growth factors and emphasizing latent TGF-β1 regulation: TGF-β1 is secreted in latent complexes (including LAP and LTBP-containing complexes) that dock to fibronectin fibrils, while integrins (particularly αv-containing integrins binding RGD on LAP) transmit cytoskeletal force to mechanically activate latent TGF-β. This couples fibronectin assembly, integrin mechanotransduction, and TGF-β activation into a self-reinforcing remodeling loop. (sofroniou2023differentialregulationof pages 1-3)
A 2023 experimental study and associated synthesis describe how fibronectin matrix remodeling can generate fibronectin-derived DAMPs, including the EDA domain and partially unfolded fibronectin type III modules (e.g., III-1), which act as agonists for Toll-like receptor 4 (TLR4). Downstream, TAK1 activation drives canonical inflammatory signaling arms including IKK/NF-ĪŗB and MAPKs (e.g., JNK), promoting cytokine induction; inhibition of TAK1 is reported as crucial for blocking cytokine release in response to fibronectin DAMPs in multiple fibroblast cell types. (maddali2023inductionofproinflammatory pages 16-17, maddali2023inductionofproinflammatory pages 17-18)
A 2024 review emphasizes that fibronectin-rich ECM contributes to tissue stiffness and aberrant mechanotransduction during cancer progression, and frames fibronectin as a key ECM component by which CAFs shape oncogenic microenvironments via alignment, crosslinking, and integrin-mediated signaling. (guerrerobarbera2024shapingoncogenicmicroenvironments pages 1-2, guerrerobarbera2024shapingoncogenicmicroenvironments pages 11-11)
A 2024 Nature Reviews Molecular Cell Biology article provides a consolidated conceptual framework of ECM assembly/remodeling, explicitly positioning fibronectin fibrillogenesis as a canonical example of force-dependent ECM polymerization and as a scaffold that templates other ECM networks (collagen and fibrillin). (naba2024mechanismsofassembly pages 37-42, naba2024mechanismsofassembly pages 29-30)
Recent translational research continues to exploit EDA and EDB as āoncofetalā or remodeling-associated fibronectin splice epitopes. A 2024 cancer therapy report summarizes that:
- EDB (91 aa) is āvirtually absentā from healthy adult tissues (with limited exceptions) but upregulated across multiple cancers.
- EDA (91 aa) is abundant in tumor stroma and neovasculature and detected across tumor types.
- Human antibodies L19 (anti-EDB) and F8 (anti-EDA) were developed (phage display) as delivery vehicles for cytokines and other payloads. (prodi2024generationandin pages 24-28)
A 2024 immunotherapy paper describes an EDA-targeted IL-7 fusion protein (F8(scDb)-IL7) designed to localize IL-7 to tumors. It reports tumor-selective accumulation with a tumor-to-blood ratio ~9.2 at 24 hours and frames the approach as leveraging high EDA/EDB expression in malignancies and low expression in healthy tissues. (nitto2024anil7fusion pages 4-5, nitto2024anil7fusion pages 1-2)
A 2024 review of tumor-homing antibodyācytokine fusions further reports a proof-of-concept where fibronectin splice-variant targeting can yield >20-fold dose reduction for comparable anti-cancer effects versus non-targeted cytokine (IL-12), highlighting how ECM targeting improves therapeutic index. (prodi2024tumorhomingantibodycytokinefusions pages 2-4)
A 2024 prospective observational study in coronary artery bypass grafting with cardiopulmonary bypass (CABG+CPB; n=40) distinguishes circulating pFN from ECM-associated EDA-FN and reports clinically relevant dynamics. Quantitatively, multivariate regression found that arterial hypertension and CPB duration significantly influenced plasma fibronectin at 6 hours (β = ā0.458, p = 0.001; β = ā0.375, p = 0.008) and 12 hours post-surgery (β = ā0.293, p = 0.026; β = ā0.554, p = 0.000). The study also reports detection of FNāfibrin complexes in all patients, consistent with coagulation activation during CPB. (lemanskaperek2024changesinvarious pages 1-2)
ClinicalTrials.gov and supporting translational reviews document real-world clinical evaluation of L19-IL2 (Darleukin), an antibodyāIL-2 fusion targeting EDB-containing fibronectin in angiogenic tumor vasculature/ECM:
- NCT02086721 (posted 2015): Phase I, single-group study combining SABR with L19-IL2 in oligometastatic solid tumors (enrollment n=18). Dose-escalation schedules are specified (10ā22.5 million IU; bolus days 1/3/5 of 21-day cycles up to 6 cycles) with toxicity as the primary endpoint (CTCAE v4.0). (NCT02086721 chunk 2, NCT02086721 chunk 1)
- NCT03705403 (IMMUNOSABR) (posted 2019): multicenter randomized open-label Phase II study in stage IV/metastatic NSCLC comparing SABR + L19-IL2 versus standard-of-care; recorded enrollment n=88 (planned 126). Primary endpoint: PFS up to 18 months. Importantly, the record includes correlative studies of tumor and blood EDB measures. (NCT03705403 chunk 1)
A 2024 review additionally reports that L19-IL2 has been evaluated in >200 patients, and in a Phase II melanoma trial established a recommended dose of 22.5 million IU per administration and reported four durable complete responses with an overall partial/complete response rate >34%. (prodi2024tumorhomingantibodycytokinefusions pages 4-5)
A 2024 Nature Reviews synthesis emphasizes that ECM assembly is a cell-directed process in which integrin-mediated forces and crosslinking remodel ECM structure and mechanics; fibronectin is singled out among the proteins most studied for assembly mechanisms, and its fibrillogenesis is described as a mechanosensitive polymerization pathway that scaffolds collagen/fibrillin deposition. This supports treating FN1 not as a passive structural molecule but as a dynamic organizer of tissue architecture and signaling. (naba2024mechanismsofassembly pages 1-3, naba2024mechanismsofassembly pages 37-42)
A 2024 translational cancer-therapy report frames EDA/EDB as highly conserved, disease-enriched epitopes that are largely absent from healthy adult tissues, enabling selective targeting (for imaging or delivery of cytokines). This perspective underpins a broad and growing class of ECM-targeting biologics, and indicates consensus that fibronectin isoform biology is not merely descriptive but clinically actionable. (prodi2024generationandin pages 24-28)
A 2024 figure schematic provides domain-resolved mapping of fibronectin motifs (RGD, synergy), modules, and binding partners (integrins, syndecans, heparin, collagen, etc.), supporting mechanistic interpretation of FN1 structureāfunction relationships. (guerrerobarbera2024shapingoncogenicmicroenvironments media 3a113e65)
| Topic | Key points (mechanistic) | Representative recent sources | Notes / Quantitative data |
|---|---|---|---|
| Identity & Isoforms | Structure: 230ā270 kDa glycoprotein dimer; exists as soluble plasma FN (pFN) and insoluble cellular FN (cFN) (guerrerobarbera2024shapingoncogenicmicroenvironments pages 1-2). Splicing: Alternative splicing of EDA (EIIIA), EDB (EIIIB), and IIICS (V) domains generates variants (lemanskaperek2024changesinvarious pages 12-12, maddali2023inductionofproinflammatory pages 17-18). Oncofetal expression: EDA and EDB isoforms are virtually absent in healthy adult tissues but highly upregulated in tumors, angiogenesis, and tissue repair (prodi2024generationandin pages 24-28, nitto2024anil7fusion pages 1-2). |
Naba (2024) Guerrero-BarberĆ (2024) Prodi (2024) |
EDB+ FN is a marker of angiogenesis and tumor stroma; IIICS splicing modulates adhesion (lemanskaperek2024changesinvarious pages 12-12, prodi2024tumorhomingantibodycytokinefusions pages 4-5). |
| Domains & Receptors | Architecture: Composed of Type I, II, and III repeats. III-9 and III-10 contain the Synergy and RGD motifs for integrin binding (naba2024mechanismsofassembly pages 37-42, guerrerobarbera2024shapingoncogenicmicroenvironments media 3a113e65). Binding Partners: Primary receptor is Integrin $\alpha5\beta1$; others include $\alpha v\beta3$ and $\alpha4\beta1$ (IIICS). Heparin-II domain (III-12/14) binds syndecans (guerrerobarbera2024shapingoncogenicmicroenvironments pages 1-2, naba2024mechanismsofassembly pages 13-14). |
Guerrero-BarberĆ (2024) Naba (2024) |
RGD is critical for development but not strictly required for fibril assembly initiation (guerrerobarbera2024shapingoncogenicmicroenvironments pages 14-15). |
| Fibrillogenesis | Step-wise Assembly: (1) Compact dimers bind integrins (e.g., $\alpha5\beta1$); (2) Actomyosin contractility exerts tensile force; (3) Conformational unfolding exposes cryptic self-association sites; (4) Intermolecular polymerization forms insoluble fibrils (sofroniou2023differentialregulationof pages 1-3, naba2024mechanismsofassembly pages 13-14, naba2024mechanismsofassembly pages 37-42). Nucleation: Can be aided by Collagen IV, Laminin, or Heparan Sulfate (naba2024mechanismsofassembly pages 29-30, naba2024mechanismsofassembly pages 16-18). |
Naba (2024) Sofroniou & Lemmon (2023) |
FN fibrils serve as a template for Collagen I and Fibrillin deposition (naba2024mechanismsofassembly pages 29-30, naba2024mechanismsofassembly pages 37-42). |
| Signaling Pathways | TGF-$\beta$ Regulation: FN fibrils bind Latent TGF-$\beta$ Binding Protein (LTBP). Integrin-mediated force on the LAP-TGF-$\beta$ complex releases active TGF-$\beta$ (sofroniou2023differentialregulationof pages 1-3, guerrerobarbera2024shapingoncogenicmicroenvironments pages 14-15). Pro-inflammatory: The EDA domain and unfolded III-1 repeats act as DAMPs, activating TLR4 $\rightarrow$ TAK1 $\rightarrow$ NF-$\kappa$B/JNK pathways to drive inflammation (maddali2023inductionofproinflammatory pages 16-17, maddali2023inductionofproinflammatory pages 17-18). |
Sofroniou (2023) Maddali (2023) |
Blocking TAK1 inhibits FN-DAMP-induced cytokine release (maddali2023inductionofproinflammatory pages 16-17). |
| Disease Roles | Cancer: CAFs produce FN-rich stiff stroma promoting metastasis and chemoresistance. Spliced variants (EDA/EDB) facilitate invasion and EMT (guerrerobarbera2024shapingoncogenicmicroenvironments pages 1-2, guerrerobarbera2024shapingoncogenicmicroenvironments pages 11-11). Fibrosis: EDA-FN drives myofibroblast differentiation and pathological scarring (e.g., keloids, pulmonary fibrosis) (lemanskaperek2024changesinvarious pages 12-12, maddali2023inductionofproinflammatory pages 17-18). Cardiovascular: Plasma FN levels correlate with hypertension and CPB duration (lemanskaperek2024changesinvarious pages 1-2). |
Guerrero-BarberĆ (2024) LemaÅska-Perek (2024) |
FN-fibrin complexes detected in coronary bypass patients (lemanskaperek2024changesinvarious pages 1-2). |
| Clinical Targeting | Antibodies: L19 (anti-EDB) and F8 (anti-EDA) human antibodies target tumor vasculature/stroma (prodi2024generationandin pages 24-28, prodi2024tumorhomingantibodycytokinefusions pages 2-4). Immunocytokines: Fusions like L19-IL2 (Darleukin) and F8-IL7 deliver cytokines to tumors to boost immunotherapy (nitto2024anil7fusion pages 1-1, prodi2024tumorhomingantibodycytokinefusions pages 4-5). Status: L19-IL2 in Phase II/III trials (e.g., Melanoma, NSCLC w/ Radiotherapy) (NCT03705403 chunk 1, chen2024theroleof pages 4-5). |
Di Nitto (2024) Prodi (2024) ClinicalTrials.gov (NCT03705403) |
F8-IL7 + PD-1 blockade eradicated sarcomas in mice (nitto2024anil7fusion pages 1-1). L19-IL2 trial (IMMUNOSABR) target accrual: N=126 (NCT03705403 chunk 1). |
Table: A summary of FN1 biology, including isoform-specific functions, assembly mechanisms, signaling roles, and current clinical applications of targeted antibody therapies.
References
(guerrerobarbera2024shapingoncogenicmicroenvironments pages 1-2): Gemma Guerrero-BarberĆ , Natalia Burday, and Mercedes Costell. Shaping oncogenic microenvironments: contribution of fibronectin. Frontiers in Cell and Developmental Biology, Apr 2024. URL: https://doi.org/10.3389/fcell.2024.1363004, doi:10.3389/fcell.2024.1363004. This article has 29 citations.
(naba2024mechanismsofassembly pages 1-3): Alexandra Naba. Mechanisms of assembly and remodelling of the extracellular matrix. Nature reviews. Molecular cell biology, 25:865-885, Sep 2024. URL: https://doi.org/10.1038/s41580-024-00767-3, doi:10.1038/s41580-024-00767-3. This article has 219 citations.
(guerrerobarbera2024shapingoncogenicmicroenvironments media 3a113e65): Gemma Guerrero-BarberĆ , Natalia Burday, and Mercedes Costell. Shaping oncogenic microenvironments: contribution of fibronectin. Frontiers in Cell and Developmental Biology, Apr 2024. URL: https://doi.org/10.3389/fcell.2024.1363004, doi:10.3389/fcell.2024.1363004. This article has 29 citations.
(lemanskaperek2024changesinvarious pages 12-12): Anna LemaÅska-Perek, Dorota Krzyżanowska-GoÅÄ b, Grzegorz WysoczaÅski, Barbara Barteczko-Grajek, Waldemar GoÅŗdzik, and Barbara Adamik. Changes in various forms of fibronectin in patients undergoing coronary artery bypass grafting with cardiopulmonary bypass ā a prospective, observational study. Scientific Reports, Dec 2024. URL: https://doi.org/10.1038/s41598-024-80765-9, doi:10.1038/s41598-024-80765-9. This article has 0 citations and is from a peer-reviewed journal.
(maddali2023inductionofproinflammatory pages 17-18): Pranav Maddali, Anthony Ambesi, and Paula J. McKeown-Longo. Induction of pro-inflammatory genes by fibronectin damps in three fibroblast cell lines: role of tak1 and map kinases. PLOS ONE, 18:e0286390, May 2023. URL: https://doi.org/10.1371/journal.pone.0286390, doi:10.1371/journal.pone.0286390. This article has 11 citations and is from a peer-reviewed journal.
(lemanskaperek2024changesinvarious pages 1-2): Anna LemaÅska-Perek, Dorota Krzyżanowska-GoÅÄ b, Grzegorz WysoczaÅski, Barbara Barteczko-Grajek, Waldemar GoÅŗdzik, and Barbara Adamik. Changes in various forms of fibronectin in patients undergoing coronary artery bypass grafting with cardiopulmonary bypass ā a prospective, observational study. Scientific Reports, Dec 2024. URL: https://doi.org/10.1038/s41598-024-80765-9, doi:10.1038/s41598-024-80765-9. This article has 0 citations and is from a peer-reviewed journal.
(naba2024mechanismsofassembly pages 13-14): Alexandra Naba. Mechanisms of assembly and remodelling of the extracellular matrix. Nature reviews. Molecular cell biology, 25:865-885, Sep 2024. URL: https://doi.org/10.1038/s41580-024-00767-3, doi:10.1038/s41580-024-00767-3. This article has 219 citations.
(naba2024mechanismsofassembly pages 37-42): Alexandra Naba. Mechanisms of assembly and remodelling of the extracellular matrix. Nature reviews. Molecular cell biology, 25:865-885, Sep 2024. URL: https://doi.org/10.1038/s41580-024-00767-3, doi:10.1038/s41580-024-00767-3. This article has 219 citations.
(sofroniou2023differentialregulationof pages 1-3): Michael M. Sofroniou and Christopher A. Lemmon. Differential regulation of fibronectin expression and fibrillogenesis by autocrine tgf-β1 signaling in malignant and benign mammary epithelial cells. The International Journal of Biochemistry & Cell Biology, 165:106478, Dec 2023. URL: https://doi.org/10.1016/j.biocel.2023.106478, doi:10.1016/j.biocel.2023.106478. This article has 4 citations.
(naba2024mechanismsofassembly pages 29-30): Alexandra Naba. Mechanisms of assembly and remodelling of the extracellular matrix. Nature reviews. Molecular cell biology, 25:865-885, Sep 2024. URL: https://doi.org/10.1038/s41580-024-00767-3, doi:10.1038/s41580-024-00767-3. This article has 219 citations.
(maddali2023inductionofproinflammatory pages 16-17): Pranav Maddali, Anthony Ambesi, and Paula J. McKeown-Longo. Induction of pro-inflammatory genes by fibronectin damps in three fibroblast cell lines: role of tak1 and map kinases. PLOS ONE, 18:e0286390, May 2023. URL: https://doi.org/10.1371/journal.pone.0286390, doi:10.1371/journal.pone.0286390. This article has 11 citations and is from a peer-reviewed journal.
(guerrerobarbera2024shapingoncogenicmicroenvironments pages 11-11): Gemma Guerrero-BarberĆ , Natalia Burday, and Mercedes Costell. Shaping oncogenic microenvironments: contribution of fibronectin. Frontiers in Cell and Developmental Biology, Apr 2024. URL: https://doi.org/10.3389/fcell.2024.1363004, doi:10.3389/fcell.2024.1363004. This article has 29 citations.
(prodi2024generationandin pages 24-28): E Prodi. Generation and in vivo validation of multi-functional antibody-fusion proteins for cancer therapy. Unknown journal, 2024.
(nitto2024anil7fusion pages 4-5): Cesare Di Nitto, Domenico Ravazza, Ettore Gilardoni, Thomas Look, Miaomiao Sun, Eleonora Prodi, Vlad Moisoiu, Christian Pellegrino, Markus G. Manz, Emanuele Puca, Michael Weller, Tobias Weiss, Dario Neri, and Roberto De Luca. An il-7 fusion protein targeting eda fibronectin upregulates tcf1 on cd8+ t-cells, preferentially accumulates to neoplastic lesions, and boosts pd-1 blockade. Journal for Immunotherapy of Cancer, 12:e008504, Aug 2024. URL: https://doi.org/10.1136/jitc-2023-008504, doi:10.1136/jitc-2023-008504. This article has 7 citations and is from a domain leading peer-reviewed journal.
(nitto2024anil7fusion pages 1-2): Cesare Di Nitto, Domenico Ravazza, Ettore Gilardoni, Thomas Look, Miaomiao Sun, Eleonora Prodi, Vlad Moisoiu, Christian Pellegrino, Markus G. Manz, Emanuele Puca, Michael Weller, Tobias Weiss, Dario Neri, and Roberto De Luca. An il-7 fusion protein targeting eda fibronectin upregulates tcf1 on cd8+ t-cells, preferentially accumulates to neoplastic lesions, and boosts pd-1 blockade. Journal for Immunotherapy of Cancer, 12:e008504, Aug 2024. URL: https://doi.org/10.1136/jitc-2023-008504, doi:10.1136/jitc-2023-008504. This article has 7 citations and is from a domain leading peer-reviewed journal.
(prodi2024tumorhomingantibodycytokinefusions pages 2-4): Eleonora Prodi, Dario Neri, and Roberto De Luca. Tumor-homing antibody-cytokine fusions for cancer therapy. OncoTargets and Therapy, 17:697-715, Aug 2024. URL: https://doi.org/10.2147/ott.s480787, doi:10.2147/ott.s480787. This article has 7 citations.
(NCT02086721 chunk 2): Phase I Clinical Study Combining L19-IL2 With SABR in Patients With Oligometastatic Solid Tumor. Maastricht Radiation Oncology. 2015. ClinicalTrials.gov Identifier: NCT02086721
(NCT02086721 chunk 1): Phase I Clinical Study Combining L19-IL2 With SABR in Patients With Oligometastatic Solid Tumor. Maastricht Radiation Oncology. 2015. ClinicalTrials.gov Identifier: NCT02086721
(NCT03705403 chunk 1): IMMUNOtherapy and Stereotactic ABlative Radiotherapy (IMMUNOSABR) a Phase II Study. Maastricht University Medical Center. 2019. ClinicalTrials.gov Identifier: NCT03705403
(prodi2024tumorhomingantibodycytokinefusions pages 4-5): Eleonora Prodi, Dario Neri, and Roberto De Luca. Tumor-homing antibody-cytokine fusions for cancer therapy. OncoTargets and Therapy, 17:697-715, Aug 2024. URL: https://doi.org/10.2147/ott.s480787, doi:10.2147/ott.s480787. This article has 7 citations.
(guerrerobarbera2024shapingoncogenicmicroenvironments pages 14-15): Gemma Guerrero-BarberĆ , Natalia Burday, and Mercedes Costell. Shaping oncogenic microenvironments: contribution of fibronectin. Frontiers in Cell and Developmental Biology, Apr 2024. URL: https://doi.org/10.3389/fcell.2024.1363004, doi:10.3389/fcell.2024.1363004. This article has 29 citations.
(naba2024mechanismsofassembly pages 16-18): Alexandra Naba. Mechanisms of assembly and remodelling of the extracellular matrix. Nature reviews. Molecular cell biology, 25:865-885, Sep 2024. URL: https://doi.org/10.1038/s41580-024-00767-3, doi:10.1038/s41580-024-00767-3. This article has 219 citations.
(nitto2024anil7fusion pages 1-1): Cesare Di Nitto, Domenico Ravazza, Ettore Gilardoni, Thomas Look, Miaomiao Sun, Eleonora Prodi, Vlad Moisoiu, Christian Pellegrino, Markus G. Manz, Emanuele Puca, Michael Weller, Tobias Weiss, Dario Neri, and Roberto De Luca. An il-7 fusion protein targeting eda fibronectin upregulates tcf1 on cd8+ t-cells, preferentially accumulates to neoplastic lesions, and boosts pd-1 blockade. Journal for Immunotherapy of Cancer, 12:e008504, Aug 2024. URL: https://doi.org/10.1136/jitc-2023-008504, doi:10.1136/jitc-2023-008504. This article has 7 citations and is from a domain leading peer-reviewed journal.
(chen2024theroleof pages 4-5): Wujun Chen, Yanhong Wang, Chunling Ren, Sha Yu, Chao Wang, Jiyao Xing, Jiazhen Xu, Saisai Yan, Tingting Zhang, Qian Li, Xiaojin Peng, Yingchun Shao, Renshuai Zhang, Daijun Zhang, and Dongming Xing. The role of tnc in atherosclerosis and drug development opportunities. International Journal of Biological Sciences, 20:127-136, Jan 2024. URL: https://doi.org/10.7150/ijbs.89890, doi:10.7150/ijbs.89890. This article has 7 citations and is from a peer-reviewed journal.
FN1 is a classic example of developmental/tissue-specific splicing with 17 named isoforms.
The key splicing events involve:
1. EDA domain (Extra Domain A, also called EIIIA) - alternative exon
2. EDB domain (Extra Domain B, also called EIIIB) - alternative exon
3. IIICS region (Variable region, V region) - can be partially or completely included
| Isoform Type | EDA | EDB | Expression | Function |
|---|---|---|---|---|
| Plasma FN | - | - | Hepatocytes, soluble | Wound healing, blood clot |
| Cellular FN | + | +/- | Fibroblasts, solid | ECM assembly, embryonic development |
| Oncofetal FN | + | + | Embryonic, tumors | Angiogenesis, tumor progression |
EDA-containing isoforms:
- Promote cell adhesion more strongly
- Essential for wound healing
- Re-expressed in cancer (oncofetal antigen)
- EDA-null mice have normal development but impaired wound healing
EDB-containing isoforms:
- Strong pro-angiogenic activity
- Expressed during embryonic development
- Re-expressed in tumor angiogenesis
- Target for cancer imaging/therapy (antibody L19)
EDA/EDB double-null mice:
- Cardiovascular defects
- Embryonic lethality or early postnatal death
- Demonstrates functional importance of these domains
UniProt lists 17 isoforms including:
- Isoform 7: Contains EDB domain
- Isoform 8: Lacks EDA domain
- Isoform 9: Lacks both EDA and EDB, uses V64 variant
- Isoform 16: Migration stimulation factor (MSF)
id: P02751
gene_symbol: FN1
product_type: PROTEIN
status: COMPLETE
taxon:
id: NCBITaxon:9606
label: Homo sapiens
description: Fibronectin is a major extracellular matrix (ECM) glycoprotein and
one of the most important adhesion molecules in vertebrates. This large 2477
amino acid multidomain protein exists as a dimer and contains three types of
repeating modules (FN-I, FN-II, and FN-III repeats) that create distinct
binding sites for cells and other ECM components. The core functions of
fibronectin center on organizing the ECM architecture and mediating cell-ECM
interactions. Through its RGD motif in the FN-III10 domain, fibronectin
directly binds integrin receptors (particularly alpha5beta1, alpha4beta1,
alphaVbeta3) to mediate cell adhesion, migration, and signaling. Fibronectin
serves as a key structural organizer by binding collagen types I-V and VII,
assembling into fibrillar networks, and coordinating ECM assembly. It also
binds fibrin through N-terminal and C-terminal sites, playing critical roles
in provisional matrix formation during wound healing and hemostasis.
Additional functions include binding heparin/heparan sulfate proteoglycans and
serving as a ligand for various cell surface receptors. Fibronectin is
essential for embryonic development, particularly in mesoderm formation,
neural crest cell migration, heart development, and vascular morphogenesis.
While the protein participates in numerous biological contexts including wound
healing, angiogenesis, and platelet function, its fundamental role is as an
ECM structural constituent and cell adhesion scaffold that integrates
mechanical and biochemical signals at the cell-matrix interface.
existing_annotations:
- term:
id: GO:0007399
label: nervous system development
evidence_type: IBA
original_reference_id: GO_REF:0000033
review:
summary: Fibronectin plays important roles in neural crest cell migration
and nervous system development during embryogenesis. However, this
represents a developmental context rather than a core molecular function
of the mature protein.
action: KEEP_AS_NON_CORE
reason: While experimentally validated (PMID:26571399 demonstrates FN1 role
in neural crest cell migration for enteric nervous system development),
nervous system development represents a specific developmental context.
The core function is ECM-mediated cell adhesion and migration; nervous
system development is one of many developmental processes where these core
functions are deployed. Appropriate to retain but mark as non-core.
additional_reference_ids:
- PMID:26571399
supported_by:
- reference_id: PMID:26571399
supporting_text: This appears to be due to the fact that collagen VI is a
poor substratum for supporting eNCC migration and can even interfere
with the migration-promo...
- term:
id: GO:0007044
label: cell-substrate junction assembly
evidence_type: IBA
original_reference_id: GO_REF:0000033
review:
summary: Fibronectin is a key component in assembling focal adhesions and
cell-substrate junctions through integrin engagement. This is a core
function directly related to fibronectin's role as a cell adhesion
substrate.
action: ACCEPT
reason: Cell-substrate junction assembly (focal adhesion formation) is a
direct and core consequence of fibronectin-integrin interactions. The RGD
motif in FN-III10 mediates integrin binding which triggers focal adhesion
assembly. Multiple experimental studies confirm fibronectin's central role
in this process. This IBA annotation is well-supported and represents core
fibronectin biology.
supported_by:
- reference_id: PMID:19126672
supporting_text: Spontaneous phosphoinositide 3-kinase signaling dynamics
drive spreading and random migration of fibroblasts
- reference_id: PMID:24658351
supporting_text: Structural basis for pure antagonism of integrin αVβ3 by
a high-affinity form of fibronectin
- term:
id: GO:0007160
label: cell-matrix adhesion
evidence_type: IBA
original_reference_id: GO_REF:0000033
review:
summary: Cell-matrix adhesion is one of the most fundamental and core
functions of fibronectin. Through integrin binding (RGD motif),
fibronectin directly mediates cell attachment to the ECM. Deep research
confirms fibronectin's primary role as a cell-adhesive ECM glycoprotein
that forms fibrillar networks (FN1-deep-research-falcon.md).
action: ACCEPT
reason: This annotation captures the quintessential function of fibronectin
as a major cell adhesion molecule. Fibronectin serves as the primary
ligand for multiple integrins (alpha5beta1, alpha4beta1, alphaVbeta3,
alphaVbeta1, alphaVbeta6, alpha8beta1) mediating cell-matrix adhesion.
This is extensively validated across decades of research and represents
core fibronectin biology. The IBA annotation is phylogenetically sound.
Cryo-EM structures show three simultaneous FN-integrin interactions at
the synergy site, RGD loop, and ADMIDAS (PMID:33962943).
supported_by:
- reference_id: PMID:33962943
supporting_text: The complex of integrin alpha5beta1 with FN7-10 shows
three simultaneous interactions critical for the stabilization of
integrin opening, namely, (i) at the synergy site of FN9, (ii) at
the RGD loop of FN10, and (iii) at the adjacent to MIDAS (ADMIDAS) of
the integrin beta1 betaI domain.
- reference_id: file:human/FN1/FN1-deep-research-falcon.md
supporting_text: Fibronectin's primary role is as a cell-adhesive ECM
glycoprotein that forms fibrillar networks and functions as a scaffold
to organize other ECM components and associated signaling molecules.
- term:
id: GO:0007507
label: heart development
evidence_type: IBA
original_reference_id: GO_REF:0000033
review:
summary: Fibronectin is essential for cardiac morphogenesis and heart
development, particularly in cardiac cushion formation and valve
development. However, like nervous system development, this represents a
specific developmental context.
action: KEEP_AS_NON_CORE
reason: While fibronectin is critical for heart development (particularly
endocardial cushion formation and valve morphogenesis), this represents
application of core adhesion/migration functions in a specific
developmental context. Heart development is one of many developmental
processes requiring fibronectin. The underlying core functions are ECM
organization and cell adhesion/migration. Appropriate as non-core.
supported_by:
- reference_id: GO_REF:0000033
- term:
id: GO:0005178
label: integrin binding
evidence_type: IBA
original_reference_id: GO_REF:0000033
review:
summary: Integrin binding is a core molecular function of fibronectin. The
RGD sequence in the FN-III10 domain directly binds integrin alpha5beta1,
and other sites engage additional integrins.
action: ACCEPT
reason: This is a fundamental molecular function annotation representing
direct protein-protein interaction. Fibronectin contains the canonical RGD
motif (Arg-Gly-Asp) in the 10th type III repeat that is the primary
recognition site for integrin alpha5beta1. Additional integrin binding
sites exist for alpha4beta1 (via CS-1 region), alphaVbeta3, and others.
Extensively validated by structural and biochemical studies. This is core
fibronectin function.
supported_by:
- reference_id: PMID:33962943
supporting_text: Structural insights into integrin α(5)β(1) opening by
fibronectin ligand
- reference_id: PMID:11792823
supporting_text: Fibulin-1 suppression of fibronectin-regulated cell
adhesion and motility
- reference_id: PMID:19738201
supporting_text: Quantitative, comparative analyses of the proteomes of
two receptor-ligand pairs, alpha(4)beta(1)-vascular cell adhesion
molecule-1 and alpha(5)beta(1...
- term:
id: GO:0043394
label: proteoglycan binding
evidence_type: IBA
original_reference_id: GO_REF:0000033
review:
summary: Fibronectin binds proteoglycans and heparan sulfate through
specific heparin-binding domains. This is a well-characterized core
molecular function important for ECM organization.
action: ACCEPT
reason: Fibronectin contains three heparin-binding sites (Hep I, Hep II, Hep
III) that mediate binding to heparan sulfate proteoglycans including
syndecans and perlecan. This interaction is important for fibronectin
matrix assembly and ECM organization. Multiple studies validate
proteoglycan binding as a core molecular function. The IBA annotation is
appropriate.
supported_by:
- reference_id: PMID:29030641
supporting_text: Lubricin binds cartilage proteins, cartilage oligomeric
matrix protein, fibronectin and collagen II at the cartilage surface
- reference_id: file:human/FN1/FN1-uniprot.txt
- term:
id: GO:0001525
label: angiogenesis
evidence_type: IEA
original_reference_id: GO_REF:0000043
review:
summary: Fibronectin supports angiogenesis through ECM scaffolding and
integrin-mediated endothelial cell adhesion and migration. While
important, this is a specific biological context rather than core
function.
action: KEEP_AS_NON_CORE
reason: Angiogenesis represents a specific biological process where
fibronectin's core adhesion and migration functions are deployed. The
anastellin fragment can inhibit angiogenesis (PMID:11209058), and
fibronectin supports endothelial cell migration (PMID:20123964). However,
angiogenesis is one of many processes utilizing fibronectin's core
functions. This IEA annotation from keyword mapping is too general for
core function. Mark as non-core.
additional_reference_ids:
- PMID:11209058
- PMID:20123964
supported_by:
- reference_id: PMID:20123964
supporting_text: In subconfluent ECs, LPP3 induced expression of
fibronectin via beta-catenin/LEF-1 signaling in a phosphatase and tensin
homologue (PTEN)-dependent ma...
- term:
id: GO:0002020
label: protease binding
evidence_type: IEA
original_reference_id: GO_REF:0000117
review:
summary: Fibronectin binds various proteases including cathepsins and MMPs.
While validated, this is less specific than other molecular function terms
describing fibronectin's binding activities.
action: ACCEPT
reason: Experimentally validated by PMID:22952693 showing cathepsin S
cleavage of nidogen-1 affecting fibronectin binding. Fibronectin is also a
substrate for multiple matrix metalloproteinases (MMPs). While this
annotation is somewhat general, it describes a real molecular interaction.
The ARBA machine learning annotation is supported by experimental
evidence. Accept but note this is less informative than specific binding
partner annotations.
additional_reference_ids:
- PMID:22952693
supported_by:
- reference_id: PMID:22952693
supporting_text: Cleavage of nidogen-1 by cathepsin S impairs its binding
to basement membrane partners.
- term:
id: GO:0005576
label: extracellular region
evidence_type: IEA
original_reference_id: GO_REF:0000120
review:
summary: Fibronectin is secreted and localized to the extracellular space
and ECM. This is accurate but overly broad - more specific cellular
component terms exist.
action: MODIFY
reason: While factually correct that fibronectin is in the extracellular
region, this is too general. More specific and informative terms include
GO:0031012 (extracellular matrix) and GO:0005615 (extracellular space).
This IEA annotation should be replaced with the more specific GO:0031012
which better captures fibronectin's structural role as an ECM component.
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
supported_by:
- reference_id: file:human/FN1/FN1-uniprot.txt
- term:
id: GO:0006953
label: acute-phase response
evidence_type: IEA
original_reference_id: GO_REF:0000043
review:
summary: Fibronectin can be upregulated during acute-phase response as part
of tissue repair. This represents a specific physiological context.
action: KEEP_AS_NON_CORE
reason: Fibronectin levels can increase during acute inflammation and tissue
injury as part of provisional matrix formation and wound healing. However,
this represents a regulatory context rather than core function. The
acute-phase response is one of many physiological situations where
fibronectin participates. The core functions are ECM organization and cell
adhesion. Mark as non-core.
supported_by:
- reference_id: GO_REF:0000043
- term:
id: GO:0007155
label: cell adhesion
evidence_type: IEA
original_reference_id: GO_REF:0000043
review:
summary: Cell adhesion is a core function of fibronectin, mediating
attachment of cells to ECM through integrin binding. This IEA annotation
correctly captures fundamental fibronectin biology.
action: ACCEPT
reason: This is essentially equivalent to the more specific GO:0007160
(cell-matrix adhesion) and represents a core function. Fibronectin is one
of the most important cell adhesion molecules in vertebrates. Through
integrin binding, it mediates cell attachment, spreading, and migration.
Extensively validated across literature. Accept this IEA annotation as
accurate, though GO:0007160 (cell-matrix adhesion) is more specific.
supported_by:
- reference_id: PMID:1423622
supporting_text: 'The three-dimensional structure of the tenth type III module
of fibronectin: an insight into RGD-mediated interactions'
- reference_id: file:human/FN1/FN1-uniprot.txt
- term:
id: GO:0008201
label: heparin binding
evidence_type: IEA
original_reference_id: GO_REF:0000043
review:
summary: Heparin binding is a well-characterized core molecular function of
fibronectin through three distinct heparin-binding domains (Hep I, II,
III).
action: ACCEPT
reason: Fibronectin contains three separate heparin-binding sites that
mediate interactions with heparin and heparan sulfate proteoglycans. This
is extensively characterized structurally and functionally. Heparin
binding is important for fibronectin matrix assembly and ECM organization.
NAS evidence from PMID:10075919 provides structural characterization. This
IEA keyword-based annotation is accurate and represents core molecular
function.
additional_reference_ids:
- PMID:10075919
supported_by:
- reference_id: PMID:10075919
supporting_text: Crystal structure of a heparin- and integrin-binding
segment of human fibronectin
- term:
id: GO:0008360
label: regulation of cell shape
evidence_type: IEA
original_reference_id: GO_REF:0000043
review:
summary: Fibronectin influences cell shape through integrin-mediated
cytoskeletal reorganization during adhesion and spreading. This is a
downstream consequence of cell adhesion.
action: KEEP_AS_NON_CORE
reason: Cell shape regulation occurs as a consequence of
fibronectin-integrin interactions triggering cytoskeletal reorganization.
While valid, this is an indirect effect downstream of the core adhesion
function rather than a direct molecular activity. Cells spread and change
shape when adhering to fibronectin substrates, but this is secondary to
the primary function of integrin binding and focal adhesion formation.
Mark as non-core.
supported_by:
- reference_id: PMID:19126672
supporting_text: Spontaneous phosphoinositide 3-kinase signaling dynamics
drive spreading and random migration of fibroblasts
- term:
id: GO:0005102
label: signaling receptor binding
evidence_type: IEA
original_reference_id: GO_REF:0000107
review:
summary: Fibronectin binds integrin receptors and other cell surface
receptors. This is accurate but somewhat general compared to the more
specific integrin binding term.
action: ACCEPT
reason: Fibronectin acts as a ligand for multiple cell surface receptors
including integrins (alpha5beta1, alpha4beta1, alphaVbeta3, etc.) and
other receptors like ILT3/LILRB4 (PMID:34089617). While GO:0005178
(integrin binding) is more specific and informative, this broader term is
also accurate. The IEA annotation from Ensembl orthology is valid. Accept
as it captures fibronectin's receptor-binding function.
additional_reference_ids:
- PMID:34089617
supported_by:
- reference_id: PMID:34089617
supporting_text: Blockade of checkpoint ILT3/LILRB4/gp49B binding to
fibronectin ameliorates autoimmune disease in BXSB/Yaa mice
- term:
id: GO:0005604
label: basement membrane
evidence_type: IEA
original_reference_id: GO_REF:0000107
review:
summary: Fibronectin is present in basement membranes but is more
characteristic of interstitial ECM. Plasma fibronectin is distinct from
cellular fibronectin in basement membranes.
action: KEEP_AS_NON_CORE
reason: While fibronectin can be found in basement membranes, it is not a
core structural component like laminin, collagen IV, nidogen, and
perlecan. Fibronectin is more abundant in interstitial ECM. The cellular
fibronectin isoform (containing EIIIA and EIIIB domains) is found in some
basement membrane zones, but this is a minor localization. The primary
fibronectin localization is GO:0031012 (extracellular matrix). Mark as
non-core.
supported_by:
- reference_id: GO_REF:0000107
- term:
id: GO:0005615
label: extracellular space
evidence_type: IEA
original_reference_id: GO_REF:0000120
review:
summary: Fibronectin is secreted into the extracellular space where it
assembles into ECM fibrils. This is a correct core localization
annotation.
action: ACCEPT
reason: Fibronectin is a secreted protein that localizes to the
extracellular space. Both plasma fibronectin (soluble in blood/body
fluids) and cellular fibronectin (assembled into ECM) occupy extracellular
space. Extensively validated by experimental localization (PMID:15292204
IDA evidence). This is an appropriate and accurate cellular component
annotation for a major ECM protein.
additional_reference_ids:
- PMID:15292204
supported_by:
- reference_id: PMID:15292204
supporting_text: BBK32, a fibronectin binding MSCRAMM from Borrelia
burgdorferi, contains a disordered region that undergoes a
conformational change on ligand binding
- term:
id: GO:0014850
label: response to muscle activity
evidence_type: IEA
original_reference_id: GO_REF:0000107
review:
summary: Fibronectin expression can be modulated by mechanical forces
including muscle activity. This represents a regulatory context rather
than core function.
action: KEEP_AS_NON_CORE
reason: Mechanical forces and muscle activity can influence fibronectin
expression and matrix remodeling in musculoskeletal tissues. However, this
is a specific physiological context of fibronectin regulation rather than
a core molecular function. Response to muscle activity is peripheral to
the core ECM organization and cell adhesion functions. Mark as non-core.
supported_by:
- reference_id: GO_REF:0000107
- term:
id: GO:0016324
label: apical plasma membrane
evidence_type: IEA
original_reference_id: GO_REF:0000107
review:
summary: Fibronectin can be associated with apical surfaces of polarized
epithelia, but this is not a primary or characteristic localization.
action: REMOVE
reason: This IEA annotation from Ensembl orthology is likely incorrect or
represents a very minor localization. Fibronectin is primarily an
extracellular matrix and extracellular space protein. While fibronectin
may interact with cells at apical surfaces in some epithelial contexts,
this is not a characteristic localization and lacks strong experimental
support. The primary localizations (ECM, extracellular space) are better
represented by other annotations. Remove as not representative of core
fibronectin biology.
supported_by:
- reference_id: GO_REF:0000107
- term:
id: GO:0016504
label: peptidase activator activity
evidence_type: IEA
original_reference_id: GO_REF:0000107
review:
summary: Fibronectin fragments can modulate protease activity, but this is
not a well-established core molecular function of intact fibronectin.
action: REMOVE
reason: While fibronectin can be cleaved by proteases and may influence
protease activity in certain contexts, peptidase activator activity is not
a well-documented core molecular function. The IEA annotation from Ensembl
orthology lacks strong experimental support. Fibronectin is primarily a
substrate for proteases (MMPs, cathepsins) rather than an activator. No
compelling evidence supports this as a core function. Remove.
supported_by:
- reference_id: GO_REF:0000107
- term:
id: GO:0031012
label: extracellular matrix
evidence_type: IEA
original_reference_id: GO_REF:0000107
review:
summary: Extracellular matrix is the primary and most characteristic
localization of fibronectin. This is a core cellular component annotation.
action: ACCEPT
reason: This is the most important cellular component annotation for
fibronectin. Fibronectin is one of the major structural constituents of
the ECM, assembling into fibrillar networks that organize the matrix
architecture. Both cellular and plasma fibronectin ultimately localize to
and organize ECM. Extensively validated across decades of research and
multiple experimental approaches (IDA, HDA, ISS evidence in other
annotations). This IEA annotation is accurate and represents core
fibronectin localization.
supported_by:
- reference_id: PMID:26571399
supporting_text: This appears to be due to the fact that collagen VI is a
poor substratum for supporting eNCC migration and can even interfere
with the migration-promo...
- reference_id: PMID:16157329
supporting_text: Sequential deposition of latent TGF-beta binding proteins
(LTBPs) during formation of the extracellular matrix in human lung
fibroblasts
- term:
id: GO:0048018
label: receptor ligand activity
evidence_type: IEA
original_reference_id: GO_REF:0000107
review:
summary: Fibronectin acts as a ligand for integrin receptors and other cell
surface receptors, mediating cell signaling. This is a valid molecular
function.
action: ACCEPT
reason: Fibronectin functions as a bona fide receptor ligand, particularly
for integrin receptors (alpha5beta1, alpha4beta1, alphaVbeta3, etc.) where
it triggers intracellular signaling cascades upon binding. This leads to
focal adhesion kinase activation, MAPK signaling, PI3K/Akt pathway
activation, and other downstream events. The term accurately describes
fibronectin's role in receptor-mediated signaling. Accept as valid
molecular function.
supported_by:
- reference_id: PMID:19126672
supporting_text: Spontaneous phosphoinositide 3-kinase signaling dynamics
drive spreading and random migration of fibroblasts
- reference_id: PMID:11792823
supporting_text: Fibulin-1 suppression of fibronectin-regulated cell
adhesion and motility
- term:
id: GO:0150102
label: negative regulation of monocyte activation
evidence_type: IEA
original_reference_id: GO_REF:0000107
review:
summary: Fibronectin can modulate monocyte activation through receptor
interactions, including inhibitory checkpoint receptors.
action: KEEP_AS_NON_CORE
reason: PMID:34089617 demonstrates that blockade of fibronectin binding to
checkpoint receptor ILT3/LILRB4 ameliorates autoimmune disease by
affecting monocyte activation. While experimentally validated, this
represents a specific immunomodulatory function in a particular disease
context rather than a core function. The fundamental role is receptor
binding; monocyte regulation is a downstream consequence in specific
contexts. Mark as non-core.
additional_reference_ids:
- PMID:34089617
supported_by:
- reference_id: PMID:34089617
supporting_text: Blockade of checkpoint ILT3/LILRB4/gp49B binding to
fibronectin ameliorates autoimmune disease in BXSB/Yaa mice
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:11377428
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:11377428
supporting_text: Binding of a peptide from a Streptococcus dysgalactiae
MSCRAMM to the N-terminal F1 module pair of human fibronectin involves
both modules
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:12736686
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:12736686
supporting_text: Pathogenic bacteria attach to human fibronectin through a
tandem beta-zipper
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:16457822
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:16457822
supporting_text: CT domain of CCN2/CTGF directly interacts with
fibronectin and enhances cell adhesion of chondrocytes through integrin
alpha5beta1
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:1747115
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:1747115
supporting_text: Interaction of the small proteoglycan decorin with
fibronectin
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:18042364
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:18042364
supporting_text: TSG-6 binds via its CUB_C domain to the cell-binding
domain of fibronectin and increases fibronectin matrix assembly
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:18160478
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:18160478
supporting_text: Novel adhesin from Pasteurella multocida that binds to
the integrin-binding fibronectin FnIII9-10 repeats
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:18243143
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:18243143
supporting_text: Uteroglobin interacts with the heparin-binding site of
fibronectin and prevents fibronectin-IgA complex formation found in
IgA-nephropathy
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:18323857
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:18323857
supporting_text: The von Hippel-Lindau (VHL) tumour suppressor protein is
important in the E3 ubiquitin ligase ECV (Elongin B/C-CUL2-VHL)-mediated
destruction of hypox...
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:18411296
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:18411296
supporting_text: The surface-exposed carboxyl region of Mycoplasma
pneumoniae elongation factor Tu interacts with fibronectin
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:18713862
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:18713862
supporting_text: Crystal structures of fibronectin-binding sites from
Staphylococcus aureus FnBPA in complex with fibronectin domains
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:19542224
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:19542224
supporting_text: Epub 2009 Jun 19. The first draft of the endostatin
interaction network.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:19738201
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:19738201
supporting_text: Quantitative, comparative analyses of the proteomes of
two receptor-ligand pairs, alpha(4)beta(1)-vascular cell adhesion
molecule-1 and alpha(5)beta(1...
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:20080707
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:20080707
supporting_text: EGF potentiated oncogenesis requires a tissue
transglutaminase-dependent signaling pathway leading to Src activation.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:20541508
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:20541508
supporting_text: Zinc induces structural reorganization of gelatin binding
domain from human fibronectin and affects collagen binding
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:20875085
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:20875085
supporting_text: Functional analysis of a murine monoclonal antibody
against the repetitive region of the fibronectin-binding adhesins
fibronectin-binding protein A an...
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:20879998
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:20879998
supporting_text: Repeat regions R1 and R2 in the P97 paralogue Mhp271 of
Mycoplasma hyopneumoniae bind heparin, fibronectin and porcine cilia
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:21569203
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:21569203
supporting_text: The A domain of fibronectin-binding protein B of
Staphylococcus aureus contains a novel fibronectin binding site
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:22442151
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:22442151
supporting_text: 'Transglutaminase-2 interaction with heparin: identification
of a heparin binding site that regulates cell adhesion to fibronectin-transglutaminase-2
m...'
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:24136289
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:24136289
supporting_text: Identification and comparative analysis of hepatitis C
virus-host cell protein interactions.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:24388360
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:24388360
supporting_text: SERPINA5 inhibits tumor cell migration by modulating the
fibronectin-integrin β1 signaling pathway in hepatocellular carcinoma
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:25034023
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:25034023
supporting_text: Epub 2014 Jul 14. Heparin/heparan sulfate controls
fibrillin-1, -2 and -3 self-interactions in microfibril assembly.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:25290767
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:25290767
supporting_text: Structural and functional analysis of the
fibronectin-binding protein FNE from Streptococcus equi spp
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:25293691
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:25293691
supporting_text: Affinity chromatography using heparin, fibronectin and
plasminogen as bait and peptide arrays were used to expand our knowledge
of the adhesive capabi...
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:2531657
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:2531657
supporting_text: Lipoprotein(a) binds to fibronectin and has serine
proteinase activity capable of cleaving it
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:25416956
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:25416956
supporting_text: A proteome-scale map of the human interactome network.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:26848503
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:26848503
supporting_text: Epub 2016 Mar 9. Mapping and Exploring the Collagen-I
Proteostasis Network.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:27141819
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:27141819
supporting_text: Furthermore, those PRMs also bound to fibronectin and
therefore might influence the Ag85 complex-dependent interaction of
Mycobacterium with the extra...
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:27616280
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:27616280
supporting_text: interactions of the previously confirmed surface-located
glycolytic enzymes...to the human extracellular matrix (ECM) proteins
fibrinogen (Fn), fibronectin (Fc), lactoferrin (Lf), laminin (Ln) and
vitronectin (Vc)
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:30082873
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:30082873
supporting_text: Lysyl oxidase (LOX) catalyzes the oxidative deamination
of lysine and hydroxylysine residues in collagens and elastin, which is
the first step of the ...
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:31759052
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:31759052
supporting_text: We here provide evidence that LOXL2 also affects
deposition of other ECM components, including fibronectin, thus altering
structural and mechanical pr...
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:33961781
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:33961781
supporting_text: 2021 May 6. Dual proteome-scale networks reveal
cell-specific remodeling of the human interactome.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:34968453
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:34968453
supporting_text: Yeast two-hybrid screening, confirmed by affinity
chromatography, identified fibronectin as a stabilin-1 interacting
partner
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:9269765
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:9269765
supporting_text: Among 11 positive clones that emerged from the screen,
eight clones were identified as beta-2 glycoprotein I and one as
fibronectin
- term:
id: GO:0042802
label: identical protein binding
evidence_type: IPI
original_reference_id: PMID:17914904
review:
summary: Fibronectin forms homodimers through C-terminal disulfide bonds.
This is a core molecular function.
action: ACCEPT
reason: Fibronectin exists as a disulfide-bonded dimer. Two monomers link
via C-terminal disulfide bonds, essential for function and matrix
assembly. This is a core molecular property validated by structural
studies. IPI annotations correctly capture this fundamental aspect of
fibronectin biology.
supported_by:
- reference_id: PMID:17914904
supporting_text: Force-induced unfolding of fibronectin in the
extracellular matrix of living cells
- term:
id: GO:0042802
label: identical protein binding
evidence_type: IPI
original_reference_id: PMID:18042364
review:
summary: Fibronectin forms homodimers through C-terminal disulfide bonds.
This is a core molecular function.
action: ACCEPT
reason: Fibronectin exists as a disulfide-bonded dimer. Two monomers link
via C-terminal disulfide bonds, essential for function and matrix
assembly. This is a core molecular property validated by structural
studies. IPI annotations correctly capture this fundamental aspect of
fibronectin biology.
supported_by:
- reference_id: PMID:18042364
supporting_text: TSG-6 binds via its CUB_C domain to the cell-binding
domain of fibronectin and increases fibronectin matrix assembly
- term:
id: GO:0042802
label: identical protein binding
evidence_type: IPI
original_reference_id: PMID:19826086
review:
summary: Fibronectin forms homodimers through C-terminal disulfide bonds.
This is a core molecular function.
action: ACCEPT
reason: Fibronectin exists as a disulfide-bonded dimer. Two monomers link
via C-terminal disulfide bonds, essential for function and matrix
assembly. This is a core molecular property validated by structural
studies. IPI annotations correctly capture this fundamental aspect of
fibronectin biology.
supported_by:
- reference_id: PMID:19826086
supporting_text: Fibronectin forms the most extensible biological fibers
displaying switchable force-exposed cryptic binding sites
- term:
id: GO:0042802
label: identical protein binding
evidence_type: IPI
original_reference_id: PMID:19931242
review:
summary: Fibronectin forms homodimers through C-terminal disulfide bonds.
This is a core molecular function.
action: ACCEPT
reason: Fibronectin exists as a disulfide-bonded dimer. Two monomers link
via C-terminal disulfide bonds, essential for function and matrix
assembly. This is a core molecular property validated by structural
studies. IPI annotations correctly capture this fundamental aspect of
fibronectin biology.
supported_by:
- reference_id: PMID:19931242
supporting_text: Cross-linked angiocidin inhibited cell migration in
contrast to monomeric angiocidin and inhibited localization of
fibronectin (FN), a pro-tumorigenic...
- term:
id: GO:0042802
label: identical protein binding
evidence_type: IPI
original_reference_id: PMID:20541508
review:
summary: Fibronectin forms homodimers through C-terminal disulfide bonds.
This is a core molecular function.
action: ACCEPT
reason: Fibronectin exists as a disulfide-bonded dimer. Two monomers link
via C-terminal disulfide bonds, essential for function and matrix
assembly. This is a core molecular property validated by structural
studies. IPI annotations correctly capture this fundamental aspect of
fibronectin biology.
supported_by:
- reference_id: PMID:20541508
supporting_text: Zinc induces structural reorganization of gelatin binding
domain from human fibronectin and affects collagen binding
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-3788061
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-3788061
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005788
label: endoplasmic reticulum lumen
evidence_type: TAS
original_reference_id: Reactome:R-HSA-8952289
review:
summary: Fibronectin is synthesized and modified in the ER during secretion.
Minor localization annotation.
action: ACCEPT
reason: As a secreted glycoprotein, fibronectin is synthesized in the ER.
This represents the secretory pathway rather than functional localization.
Accurate but represents trafficking. Accept as valid but note this is
transient, not functional localization.
supported_by:
- reference_id: Reactome:R-HSA-8952289
- term:
id: GO:0005577
label: fibrinogen complex
evidence_type: IPI
original_reference_id: PMID:20541508
review:
summary: Fibronectin binds fibrin/fibrinogen forming complexes important for
provisional matrix and wound healing.
action: ACCEPT
reason: Fibronectin contains fibrin-binding sites at N-terminal and
C-terminal regions. Interaction with fibrin(ogen) is critical for
provisional matrix formation during hemostasis and wound healing.
Experimentally validated. Core molecular interaction. Accept.
supported_by:
- reference_id: PMID:20541508
supporting_text: Zinc induces structural reorganization of gelatin binding
domain from human fibronectin and affects collagen binding
- term:
id: GO:0005615
label: extracellular space
evidence_type: IDA
original_reference_id: PMID:15292204
review:
summary: Fibronectin is secreted into extracellular space. Core localization
annotation.
action: ACCEPT
reason: Fibronectin is a secreted protein localizing to extracellular space.
Both plasma fibronectin (soluble in body fluids) and cellular fibronectin
(assembled into ECM) occupy extracellular space. Appropriate cellular
component annotation.
supported_by:
- reference_id: PMID:15292204
supporting_text: BBK32, a fibronectin binding MSCRAMM from Borrelia
burgdorferi, contains a disordered region that undergoes a
conformational change on ligand binding
- term:
id: GO:0072378
label: blood coagulation, fibrin clot formation
evidence_type: IDA
original_reference_id: PMID:3997886
review:
summary: Fibronectin participates in fibrin clot formation through fibrin
binding, but this is a specific physiological context.
action: KEEP_AS_NON_CORE
reason: Fibronectin-fibrin interaction contributes to clot formation and
provisional matrix assembly (PMID:3997886). However, blood coagulation
represents one specific biological context where fibronectin's core
binding functions are deployed. The fundamental activities are fibrin
binding and ECM organization. Mark as non-core.
additional_reference_ids:
- PMID:3997886
supported_by:
- reference_id: PMID:3997886
supporting_text: In contrast, incorporation of 125I-fibronectin into clots
was dependent upon cross-linking
- term:
id: GO:0031012
label: extracellular matrix
evidence_type: HDA
original_reference_id: PMID:23658023
review:
summary: Extracellular matrix is fibronectin's primary localization.
Accurate HDA annotation.
action: ACCEPT
reason: High-throughput detection assays confirm fibronectin as an ECM
component. While multiple HDA annotations exist, they come from different
studies/contexts. ECM is the core localization. Accept but note some
redundancy across annotations.
supported_by:
- reference_id: PMID:23658023
supporting_text: We show that identified candidate molecules can support
attachment and self-renewal of hESCs alone (fibrillin-1) or in
combination with fibronectin (p...
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-1566981
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-1566981
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-202723
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-202723
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-216050
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-216050
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-2327733
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-2327733
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-2327746
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-2327746
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-2396337
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-2396337
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-2533950
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-2533950
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-2537665
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-2537665
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-2545196
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-2545196
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-2681681
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-2681681
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-2731141
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-2731141
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-349593
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-349593
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-354066
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-354066
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-354073
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-354073
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-354087
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-354087
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-354124
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-354124
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-354149
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-354149
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-354165
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-354165
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-372693
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-372693
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-372697
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-372697
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-372705
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-372705
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-377640
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-377640
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-377641
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-377641
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-377643
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-377643
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-377644
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-377644
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-3785684
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-3785684
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-429415
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-429415
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-429441
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-429441
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-481007
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-481007
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-6785895
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-6785895
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-9624017
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-9624017
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-9638552
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-9638552
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-9865226
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-9865226
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-9932034
review:
summary: Extracellular region annotation - too general, should use
extracellular matrix.
action: MODIFY
reason: While fibronectin is in the extracellular region, this term is too
general. The more specific GO:0031012 (extracellular matrix) better
captures fibronectin's structural role as an ECM component.
supported_by:
- reference_id: Reactome:R-HSA-9932034
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
- term:
id: GO:0031093
label: platelet alpha granule lumen
evidence_type: TAS
original_reference_id: Reactome:R-HSA-481007
review:
summary: Plasma fibronectin is stored in platelet alpha granules and
released upon activation.
action: ACCEPT
reason: Fibronectin is a known component of platelet alpha granules,
released during platelet activation for hemostasis and provisional matrix
formation. Well-documented localization for plasma fibronectin pool.
Accept as valid cellular component annotation.
supported_by:
- reference_id: Reactome:R-HSA-481007
- term:
id: GO:0043542
label: endothelial cell migration
evidence_type: IDA
original_reference_id: PMID:20123964
review:
summary: Fibronectin supports endothelial cell migration, but this is a
cell-type-specific process.
action: KEEP_AS_NON_CORE
reason: PMID:20123964 demonstrates fibronectin-mediated endothelial cell
migration. However, this represents application of core cell
adhesion/migration functions in a specific cell type (angiogenesis
context). Fibronectin mediates migration of many cell types. Mark as
non-core.
additional_reference_ids:
- PMID:20123964
supported_by:
- reference_id: PMID:20123964
supporting_text: In subconfluent ECs, LPP3 induced expression of
fibronectin via beta-catenin/LEF-1 signaling in a phosphatase and tensin
homologue (PTEN)-dependent ma...
- term:
id: GO:0005886
label: plasma membrane
evidence_type: TAS
original_reference_id: Reactome:R-HSA-9700181
review:
summary: Fibronectin interacts with integrins at the plasma membrane, but
fibronectin itself is extracellular.
action: KEEP_AS_NON_CORE
reason: These Reactome annotations refer to fibronectin-integrin complexes
at cell surfaces. However, fibronectin is an extracellular protein; plasma
membrane localization refers to its binding partners (integrins). This is
indirect. Additionally, 12 separate annotations for the same term
represent over-annotation. Mark as non-core.
supported_by:
- reference_id: Reactome:R-HSA-9700181
- term:
id: GO:0005886
label: plasma membrane
evidence_type: TAS
original_reference_id: Reactome:R-HSA-9700190
review:
summary: Fibronectin interacts with integrins at the plasma membrane, but
fibronectin itself is extracellular.
action: KEEP_AS_NON_CORE
reason: These Reactome annotations refer to fibronectin-integrin complexes
at cell surfaces. However, fibronectin is an extracellular protein; plasma
membrane localization refers to its binding partners (integrins). This is
indirect. Additionally, 12 separate annotations for the same term
represent over-annotation. Mark as non-core.
supported_by:
- reference_id: Reactome:R-HSA-9700190
- term:
id: GO:0005886
label: plasma membrane
evidence_type: TAS
original_reference_id: Reactome:R-HSA-9700193
review:
summary: Fibronectin interacts with integrins at the plasma membrane, but
fibronectin itself is extracellular.
action: KEEP_AS_NON_CORE
reason: These Reactome annotations refer to fibronectin-integrin complexes
at cell surfaces. However, fibronectin is an extracellular protein; plasma
membrane localization refers to its binding partners (integrins). This is
indirect. Additionally, 12 separate annotations for the same term
represent over-annotation. Mark as non-core.
supported_by:
- reference_id: Reactome:R-HSA-9700193
- term:
id: GO:0005886
label: plasma membrane
evidence_type: TAS
original_reference_id: Reactome:R-HSA-9712078
review:
summary: Fibronectin interacts with integrins at the plasma membrane, but
fibronectin itself is extracellular.
action: KEEP_AS_NON_CORE
reason: These Reactome annotations refer to fibronectin-integrin complexes
at cell surfaces. However, fibronectin is an extracellular protein; plasma
membrane localization refers to its binding partners (integrins). This is
indirect. Additionally, 12 separate annotations for the same term
represent over-annotation. Mark as non-core.
supported_by:
- reference_id: Reactome:R-HSA-9712078
- term:
id: GO:0005886
label: plasma membrane
evidence_type: TAS
original_reference_id: Reactome:R-HSA-9712079
review:
summary: Fibronectin interacts with integrins at the plasma membrane, but
fibronectin itself is extracellular.
action: KEEP_AS_NON_CORE
reason: These Reactome annotations refer to fibronectin-integrin complexes
at cell surfaces. However, fibronectin is an extracellular protein; plasma
membrane localization refers to its binding partners (integrins). This is
indirect. Additionally, 12 separate annotations for the same term
represent over-annotation. Mark as non-core.
supported_by:
- reference_id: Reactome:R-HSA-9712079
- term:
id: GO:0005886
label: plasma membrane
evidence_type: TAS
original_reference_id: Reactome:R-HSA-9712083
review:
summary: Fibronectin interacts with integrins at the plasma membrane, but
fibronectin itself is extracellular.
action: KEEP_AS_NON_CORE
reason: These Reactome annotations refer to fibronectin-integrin complexes
at cell surfaces. However, fibronectin is an extracellular protein; plasma
membrane localization refers to its binding partners (integrins). This is
indirect. Additionally, 12 separate annotations for the same term
represent over-annotation. Mark as non-core.
supported_by:
- reference_id: Reactome:R-HSA-9712083
- term:
id: GO:0005886
label: plasma membrane
evidence_type: TAS
original_reference_id: Reactome:R-HSA-9712084
review:
summary: Fibronectin interacts with integrins at the plasma membrane, but
fibronectin itself is extracellular.
action: KEEP_AS_NON_CORE
reason: These Reactome annotations refer to fibronectin-integrin complexes
at cell surfaces. However, fibronectin is an extracellular protein; plasma
membrane localization refers to its binding partners (integrins). This is
indirect. Additionally, 12 separate annotations for the same term
represent over-annotation. Mark as non-core.
supported_by:
- reference_id: Reactome:R-HSA-9712084
- term:
id: GO:0005886
label: plasma membrane
evidence_type: TAS
original_reference_id: Reactome:R-HSA-9712085
review:
summary: Fibronectin interacts with integrins at the plasma membrane, but
fibronectin itself is extracellular.
action: KEEP_AS_NON_CORE
reason: These Reactome annotations refer to fibronectin-integrin complexes
at cell surfaces. However, fibronectin is an extracellular protein; plasma
membrane localization refers to its binding partners (integrins). This is
indirect. Additionally, 12 separate annotations for the same term
represent over-annotation. Mark as non-core.
supported_by:
- reference_id: Reactome:R-HSA-9712085
- term:
id: GO:0005886
label: plasma membrane
evidence_type: TAS
original_reference_id: Reactome:R-HSA-9724099
review:
summary: Fibronectin interacts with integrins at the plasma membrane, but
fibronectin itself is extracellular.
action: KEEP_AS_NON_CORE
reason: These Reactome annotations refer to fibronectin-integrin complexes
at cell surfaces. However, fibronectin is an extracellular protein; plasma
membrane localization refers to its binding partners (integrins). This is
indirect. Additionally, 12 separate annotations for the same term
represent over-annotation. Mark as non-core.
supported_by:
- reference_id: Reactome:R-HSA-9724099
- term:
id: GO:0005886
label: plasma membrane
evidence_type: TAS
original_reference_id: Reactome:R-HSA-9850958
review:
summary: Fibronectin interacts with integrins at the plasma membrane, but
fibronectin itself is extracellular.
action: KEEP_AS_NON_CORE
reason: These Reactome annotations refer to fibronectin-integrin complexes
at cell surfaces. However, fibronectin is an extracellular protein; plasma
membrane localization refers to its binding partners (integrins). This is
indirect. Additionally, 12 separate annotations for the same term
represent over-annotation. Mark as non-core.
supported_by:
- reference_id: Reactome:R-HSA-9850958
- term:
id: GO:0005178
label: integrin binding
evidence_type: IDA
original_reference_id: PMID:33962943
review:
summary: Integrin binding is a core molecular function mediated by RGD motif
and other sites.
action: ACCEPT
reason: Fibronectin's RGD motif in FN-III10 binds integrin alpha5beta1.
Additional sites engage alpha4beta1, alphaVbeta3, and others. Extensively
validated by structural and biochemical studies. Core function. Accept.
supported_by:
- reference_id: PMID:33962943
supporting_text: Structural insights into integrin α(5)β(1) opening by
fibronectin ligand
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:33962943
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:33962943
supporting_text: Structural insights into integrin α(5)β(1) opening by
fibronectin ligand
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:12167537
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:12167537
supporting_text: Several regions of the repeat domain of the
Staphylococcus caprae autolysin, AtlC, are involved in fibronectin
binding
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:12421310
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:12421310
supporting_text: Elongation factor Tu and E1 beta subunit of pyruvate
dehydrogenase complex act as fibronectin binding proteins in Mycoplasma
pneumoniae
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:15292204
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:15292204
supporting_text: BBK32, a fibronectin binding MSCRAMM from Borrelia
burgdorferi, contains a disordered region that undergoes a
conformational change on ligand binding
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:17849409
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:17849409
supporting_text: Interestingly, GlnA1 was able to bind the extracellular
matrix (ECM) protein fibronectin
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:19429745
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:19429745
supporting_text: 'Enolase from Paracoccidioides brasiliensis: isolation and
identification as a fibronectin-binding protein'
- term:
id: GO:0031012
label: extracellular matrix
evidence_type: IDA
original_reference_id: PMID:26571399
review:
summary: Extracellular matrix is the primary localization of fibronectin.
Core cellular component annotation.
action: ACCEPT
reason: This is the most important cellular component annotation for
fibronectin. Fibronectin is a major structural constituent of the ECM,
assembling into fibrillar networks. Extensively validated across decades
of research. This annotation is accurate and represents core fibronectin
localization.
supported_by:
- reference_id: PMID:26571399
supporting_text: This appears to be due to the fact that collagen VI is a
poor substratum for supporting eNCC migration and can even interfere
with the migration-promo...
- term:
id: GO:1901166
label: neural crest cell migration involved in autonomic nervous system
development
evidence_type: IDA
original_reference_id: PMID:26571399
review:
summary: Fibronectin mediates neural crest migration for autonomic nervous
system development. Specific developmental context.
action: KEEP_AS_NON_CORE
reason: This is essentially the same as GO:0048484 but more specific to
autonomic nervous system. Experimentally validated (PMID:26571399).
Represents specific developmental application of core migration functions.
Mark as non-core.
additional_reference_ids:
- PMID:26571399
supported_by:
- reference_id: PMID:26571399
supporting_text: This appears to be due to the fact that collagen VI is a
poor substratum for supporting eNCC migration and can even interfere
with the migration-promo...
- term:
id: GO:0008284
label: positive regulation of cell population proliferation
evidence_type: IDA
original_reference_id: PMID:25834989
review:
summary: Fibronectin can promote cell proliferation through integrin
signaling. Regulatory function in specific contexts.
action: KEEP_AS_NON_CORE
reason: Experimental validation (PMID:25834989) shows fibulin1C peptide
induces proliferation via fibronectin interactions. While valid,
proliferation regulation is a downstream consequence and
context-dependent. Core functions are adhesion and signaling. Mark as
non-core.
additional_reference_ids:
- PMID:25834989
supported_by:
- reference_id: PMID:25834989
supporting_text: In addition, FBLN1C1 stimulated fibulin1 deposition in PF
and COPD fibroblasts, and augmented fibronectin and perlecan deposition
in all three groups
- term:
id: GO:0005102
label: signaling receptor binding
evidence_type: IDA
original_reference_id: PMID:34089617
review:
summary: Fibronectin binds signaling receptors including integrins and
checkpoint receptors.
action: ACCEPT
reason: Experimental validation (PMID:34089617) shows fibronectin binds
ILT3/LILRB4 checkpoint receptor. Combined with integrin binding, this term
accurately captures receptor-binding function. While GO:0005178 (integrin
binding) is more specific, this broader term is also valid. Accept.
additional_reference_ids:
- PMID:34089617
supported_by:
- reference_id: PMID:34089617
supporting_text: Blockade of checkpoint ILT3/LILRB4/gp49B binding to
fibronectin ameliorates autoimmune disease in BXSB/Yaa mice
- term:
id: GO:0150102
label: negative regulation of monocyte activation
evidence_type: IDA
original_reference_id: PMID:34089617
review:
summary: Fibronectin modulates monocyte activation through checkpoint
receptor interactions.
action: KEEP_AS_NON_CORE
reason: Experimental validation (PMID:34089617) in autoimmune disease model.
Fibronectin-ILT3 interactions regulate monocyte function. While valid,
this represents a specific immunomodulatory function in particular disease
contexts. Core function is receptor binding. Mark as non-core.
additional_reference_ids:
- PMID:34089617
supported_by:
- reference_id: PMID:34089617
supporting_text: Blockade of checkpoint ILT3/LILRB4/gp49B binding to
fibronectin ameliorates autoimmune disease in BXSB/Yaa mice
- term:
id: GO:0005886
label: plasma membrane
evidence_type: TAS
original_reference_id: Reactome:R-HSA-9700131
review:
summary: Fibronectin interacts with integrins at the plasma membrane, but
fibronectin itself is extracellular.
action: KEEP_AS_NON_CORE
reason: These Reactome annotations refer to fibronectin-integrin complexes
at cell surfaces. However, fibronectin is an extracellular protein; plasma
membrane localization refers to its binding partners (integrins). This is
indirect. Additionally, 12 separate annotations for the same term
represent over-annotation. Mark as non-core.
supported_by:
- reference_id: Reactome:R-HSA-9700131
- term:
id: GO:0005886
label: plasma membrane
evidence_type: TAS
original_reference_id: Reactome:R-HSA-9700179
review:
summary: Fibronectin interacts with integrins at the plasma membrane, but
fibronectin itself is extracellular.
action: KEEP_AS_NON_CORE
reason: These Reactome annotations refer to fibronectin-integrin complexes
at cell surfaces. However, fibronectin is an extracellular protein; plasma
membrane localization refers to its binding partners (integrins). This is
indirect. Additionally, 12 separate annotations for the same term
represent over-annotation. Mark as non-core.
supported_by:
- reference_id: Reactome:R-HSA-9700179
- term:
id: GO:0007229
label: integrin-mediated signaling pathway
evidence_type: IDA
original_reference_id: PMID:19126672
review:
summary: Fibronectin-integrin binding triggers signaling cascades. This is a
direct consequence of integrin engagement.
action: ACCEPT
reason: Fibronectin binding to integrins triggers intracellular signaling
(FAK, PI3K, MAPK pathways). Experimental validation (PMID:19126672). While
downstream of integrin binding, signaling initiation is a direct and
important consequence of fibronectin-integrin interactions. Accept.
additional_reference_ids:
- PMID:19126672
supported_by:
- reference_id: PMID:19126672
supporting_text: Spontaneous phosphoinositide 3-kinase signaling dynamics
drive spreading and random migration of fibroblasts
- term:
id: GO:0034446
label: substrate adhesion-dependent cell spreading
evidence_type: IDA
original_reference_id: PMID:19126672
review:
summary: Fibronectin substrates promote cell spreading through integrin
engagement. Direct functional consequence.
action: ACCEPT
reason: Cell spreading on fibronectin substrates is a direct and measurable
consequence of integrin-mediated adhesion. Well-validated experimentally
(PMID:19126672, PMID:24658351, PMID:16236823). This represents a core
adhesive function of fibronectin. Accept.
supported_by:
- reference_id: PMID:19126672
supporting_text: Spontaneous phosphoinositide 3-kinase signaling dynamics
drive spreading and random migration of fibroblasts
- term:
id: GO:0051897
label: positive regulation of phosphatidylinositol 3-kinase/protein kinase B
signal transduction
evidence_type: IDA
original_reference_id: PMID:19126672
review:
summary: Fibronectin-integrin engagement activates PI3K/Akt signaling.
Direct signaling consequence.
action: ACCEPT
reason: Fibronectin binding to integrins triggers PI3K/Akt pathway
activation, promoting cell survival and migration. Experimental validation
(PMID:19126672). This is a well-established signaling consequence of
fibronectin-integrin interactions. Accept.
additional_reference_ids:
- PMID:19126672
supported_by:
- reference_id: PMID:19126672
supporting_text: Spontaneous phosphoinositide 3-kinase signaling dynamics
drive spreading and random migration of fibroblasts
- term:
id: GO:0005201
label: extracellular matrix structural constituent
evidence_type: HDA
original_reference_id: PMID:28344315
review:
summary: Fibronectin is a major structural constituent of the ECM,
assembling into fibrillar networks that organize matrix architecture.
action: ACCEPT
reason: This is a core molecular function annotation. Fibronectin provides
structural integrity to the ECM through its fibrillar assembly and
interactions with other matrix components. This term captures
fibronectin's fundamental role as an ECM scaffold protein. Multiple
experimental validations (HDA, RCA, ISS evidence codes) support this
annotation.
supported_by:
- reference_id: PMID:28344315
supporting_text: Proteomic characterization of human multiple myeloma bone
marrow extracellular matrix
- term:
id: GO:0005201
label: extracellular matrix structural constituent
evidence_type: RCA
original_reference_id: PMID:28327460
review:
summary: Fibronectin is a major structural constituent of the ECM,
assembling into fibrillar networks that organize matrix architecture.
action: ACCEPT
reason: This is a core molecular function annotation. Fibronectin provides
structural integrity to the ECM through its fibrillar assembly and
interactions with other matrix components. This term captures
fibronectin's fundamental role as an ECM scaffold protein. Multiple
experimental validations (HDA, RCA, ISS evidence codes) support this
annotation.
supported_by:
- reference_id: PMID:28327460
supporting_text: In the stem-cell niche, the extracellular matrix (ECM)
serves as a structural support that additionally provides stem cells
with signals that contribu...
- term:
id: GO:0031012
label: extracellular matrix
evidence_type: HDA
original_reference_id: PMID:28327460
review:
summary: Extracellular matrix is fibronectin's primary localization.
Accurate HDA annotation.
action: ACCEPT
reason: High-throughput detection assays confirm fibronectin as an ECM
component. While multiple HDA annotations exist, they come from different
studies/contexts. ECM is the core localization. Accept but note some
redundancy across annotations.
supported_by:
- reference_id: PMID:28327460
supporting_text: In the stem-cell niche, the extracellular matrix (ECM)
serves as a structural support that additionally provides stem cells
with signals that contribu...
- term:
id: GO:0031012
label: extracellular matrix
evidence_type: IDA
original_reference_id: PMID:16157329
review:
summary: Extracellular matrix is the primary localization of fibronectin.
Core cellular component annotation.
action: ACCEPT
reason: This is the most important cellular component annotation for
fibronectin. Fibronectin is a major structural constituent of the ECM,
assembling into fibrillar networks. Extensively validated across decades
of research. This annotation is accurate and represents core fibronectin
localization.
supported_by:
- reference_id: PMID:16157329
supporting_text: Sequential deposition of latent TGF-beta binding proteins
(LTBPs) during formation of the extracellular matrix in human lung
fibroblasts
- term:
id: GO:0043394
label: proteoglycan binding
evidence_type: IDA
original_reference_id: PMID:29030641
review:
summary: Proteoglycan binding through heparin-binding domains. Core
molecular function.
action: ACCEPT
reason: Fibronectin contains three heparin-binding sites that mediate
binding to heparan sulfate proteoglycans. Important for fibronectin matrix
assembly and ECM organization. Experimentally validated. Core molecular
function. Accept.
supported_by:
- reference_id: PMID:29030641
supporting_text: Lubricin binds cartilage proteins, cartilage oligomeric
matrix protein, fibronectin and collagen II at the cartilage surface
- term:
id: GO:0031012
label: extracellular matrix
evidence_type: HDA
original_reference_id: PMID:28344315
review:
summary: Extracellular matrix is fibronectin's primary localization.
Accurate HDA annotation.
action: ACCEPT
reason: High-throughput detection assays confirm fibronectin as an ECM
component. While multiple HDA annotations exist, they come from different
studies/contexts. ECM is the core localization. Accept but note some
redundancy across annotations.
supported_by:
- reference_id: PMID:28344315
supporting_text: Proteomic characterization of human multiple myeloma bone
marrow extracellular matrix
- term:
id: GO:0005201
label: extracellular matrix structural constituent
evidence_type: RCA
original_reference_id: PMID:28675934
review:
summary: Fibronectin is a major structural constituent of the ECM,
assembling into fibrillar networks that organize matrix architecture.
action: ACCEPT
reason: This is a core molecular function annotation. Fibronectin provides
structural integrity to the ECM through its fibrillar assembly and
interactions with other matrix components. This term captures
fibronectin's fundamental role as an ECM scaffold protein. Multiple
experimental validations (HDA, RCA, ISS evidence codes) support this
annotation.
supported_by:
- reference_id: PMID:28675934
supporting_text: Characterization of the Extracellular Matrix of Normal
and Diseased Tissues Using Proteomics
- term:
id: GO:0031012
label: extracellular matrix
evidence_type: HDA
original_reference_id: PMID:28675934
review:
summary: Extracellular matrix is fibronectin's primary localization.
Accurate HDA annotation.
action: ACCEPT
reason: High-throughput detection assays confirm fibronectin as an ECM
component. While multiple HDA annotations exist, they come from different
studies/contexts. ECM is the core localization. Accept but note some
redundancy across annotations.
supported_by:
- reference_id: PMID:28675934
supporting_text: Characterization of the Extracellular Matrix of Normal
and Diseased Tissues Using Proteomics
- term:
id: GO:0005201
label: extracellular matrix structural constituent
evidence_type: RCA
original_reference_id: PMID:23979707
review:
summary: Fibronectin is a major structural constituent of the ECM,
assembling into fibrillar networks that organize matrix architecture.
action: ACCEPT
reason: This is a core molecular function annotation. Fibronectin provides
structural integrity to the ECM through its fibrillar assembly and
interactions with other matrix components. This term captures
fibronectin's fundamental role as an ECM scaffold protein. Multiple
experimental validations (HDA, RCA, ISS evidence codes) support this
annotation.
supported_by:
- reference_id: PMID:23979707
supporting_text: By comparing proteomic changes in primary human
endothelial cells morphogenesis on matrigel to general adhesion
mechanisms in cells spreading on cultu...
- term:
id: GO:0005201
label: extracellular matrix structural constituent
evidence_type: RCA
original_reference_id: PMID:27559042
review:
summary: Fibronectin is a major structural constituent of the ECM,
assembling into fibrillar networks that organize matrix architecture.
action: ACCEPT
reason: This is a core molecular function annotation. Fibronectin provides
structural integrity to the ECM through its fibrillar assembly and
interactions with other matrix components. This term captures
fibronectin's fundamental role as an ECM scaffold protein. Multiple
experimental validations (HDA, RCA, ISS evidence codes) support this
annotation.
supported_by:
- reference_id: PMID:27559042
supporting_text: We used proteomics to profile glycoproteins in the human
cardiac extracellular matrix (ECM)
- term:
id: GO:0005201
label: extracellular matrix structural constituent
evidence_type: ISS
original_reference_id: GO_REF:0000024
review:
summary: Fibronectin is a major structural constituent of the ECM,
assembling into fibrillar networks that organize matrix architecture.
action: ACCEPT
reason: This is a core molecular function annotation. Fibronectin provides
structural integrity to the ECM through its fibrillar assembly and
interactions with other matrix components. This term captures
fibronectin's fundamental role as an ECM scaffold protein. Multiple
experimental validations (HDA, RCA, ISS evidence codes) support this
annotation.
supported_by:
- reference_id: GO_REF:0000024
- term:
id: GO:0005201
label: extracellular matrix structural constituent
evidence_type: RCA
original_reference_id: PMID:20551380
review:
summary: Fibronectin is a major structural constituent of the ECM,
assembling into fibrillar networks that organize matrix architecture.
action: ACCEPT
reason: This is a core molecular function annotation. Fibronectin provides
structural integrity to the ECM through its fibrillar assembly and
interactions with other matrix components. This term captures
fibronectin's fundamental role as an ECM scaffold protein. Multiple
experimental validations (HDA, RCA, ISS evidence codes) support this
annotation.
supported_by:
- reference_id: PMID:20551380
supporting_text: For instance, we were able to detect matrix
metalloproteinase-9 by mass spectrometry and relate its presence to
degradation of fibronectin in a clinic...
- term:
id: GO:0005201
label: extracellular matrix structural constituent
evidence_type: RCA
original_reference_id: PMID:25037231
review:
summary: Fibronectin is a major structural constituent of the ECM,
assembling into fibrillar networks that organize matrix architecture.
action: ACCEPT
reason: This is a core molecular function annotation. Fibronectin provides
structural integrity to the ECM through its fibrillar assembly and
interactions with other matrix components. This term captures
fibronectin's fundamental role as an ECM scaffold protein. Multiple
experimental validations (HDA, RCA, ISS evidence codes) support this
annotation.
supported_by:
- reference_id: PMID:25037231
supporting_text: Extracellular matrix signatures of human primary
metastatic colon cancers and their metastases to liver
- term:
id: GO:0031012
label: extracellular matrix
evidence_type: HDA
original_reference_id: PMID:25037231
review:
summary: Extracellular matrix is fibronectin's primary localization.
Accurate HDA annotation.
action: ACCEPT
reason: High-throughput detection assays confirm fibronectin as an ECM
component. While multiple HDA annotations exist, they come from different
studies/contexts. ECM is the core localization. Accept but note some
redundancy across annotations.
supported_by:
- reference_id: PMID:25037231
supporting_text: Extracellular matrix signatures of human primary
metastatic colon cancers and their metastases to liver
- term:
id: GO:0005576
label: extracellular region
evidence_type: HDA
original_reference_id: PMID:27068509
review:
summary: Fibronectin is extracellular, but more specific terms (ECM,
extracellular space) are preferable.
action: MODIFY
reason: While factually correct, GO:0005576 is too general. Replace with
GO:0031012 (extracellular matrix) which better captures fibronectin's
structural role as an ECM component.
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
supported_by:
- reference_id: PMID:27068509
supporting_text: 'Extracellular matrix remodelling in response to venous hypertension:
proteomics of human varicose veins'
- term:
id: GO:0031012
label: extracellular matrix
evidence_type: HDA
original_reference_id: PMID:27559042
review:
summary: Extracellular matrix is fibronectin's primary localization.
Accurate HDA annotation.
action: ACCEPT
reason: High-throughput detection assays confirm fibronectin as an ECM
component. While multiple HDA annotations exist, they come from different
studies/contexts. ECM is the core localization. Accept but note some
redundancy across annotations.
supported_by:
- reference_id: PMID:27559042
supporting_text: We used proteomics to profile glycoproteins in the human
cardiac extracellular matrix (ECM)
- term:
id: GO:0005615
label: extracellular space
evidence_type: HDA
original_reference_id: PMID:20551380
review:
summary: Fibronectin is secreted into extracellular space. Core localization
annotation.
action: ACCEPT
reason: Fibronectin is a secreted protein localizing to extracellular space.
Both plasma fibronectin (soluble in body fluids) and cellular fibronectin
(assembled into ECM) occupy extracellular space. Appropriate cellular
component annotation.
supported_by:
- reference_id: PMID:20551380
supporting_text: For instance, we were able to detect matrix
metalloproteinase-9 by mass spectrometry and relate its presence to
degradation of fibronectin in a clinic...
- term:
id: GO:0031012
label: extracellular matrix
evidence_type: HDA
original_reference_id: PMID:20551380
review:
summary: Extracellular matrix is fibronectin's primary localization.
Accurate HDA annotation.
action: ACCEPT
reason: High-throughput detection assays confirm fibronectin as an ECM
component. While multiple HDA annotations exist, they come from different
studies/contexts. ECM is the core localization. Accept but note some
redundancy across annotations.
supported_by:
- reference_id: PMID:20551380
supporting_text: For instance, we were able to detect matrix
metalloproteinase-9 by mass spectrometry and relate its presence to
degradation of fibronectin in a clinic...
- term:
id: GO:0031012
label: extracellular matrix
evidence_type: ISS
original_reference_id: PMID:22261194
review:
summary: Extracellular matrix is the primary localization of fibronectin.
Core cellular component annotation.
action: ACCEPT
reason: This is the most important cellular component annotation for
fibronectin. Fibronectin is a major structural constituent of the ECM,
assembling into fibrillar networks. Extensively validated across decades
of research. This annotation is accurate and represents core fibronectin
localization.
supported_by:
- reference_id: PMID:22261194
supporting_text: Proteomics analysis of cardiac extracellular matrix
remodeling in a porcine model of ischemia/reperfusion injury
- term:
id: GO:0031012
label: extracellular matrix
evidence_type: HDA
original_reference_id: PMID:23979707
review:
summary: Extracellular matrix is fibronectin's primary localization.
Accurate HDA annotation.
action: ACCEPT
reason: High-throughput detection assays confirm fibronectin as an ECM
component. While multiple HDA annotations exist, they come from different
studies/contexts. ECM is the core localization. Accept but note some
redundancy across annotations.
supported_by:
- reference_id: PMID:23979707
supporting_text: By comparing proteomic changes in primary human
endothelial cells morphogenesis on matrigel to general adhesion
mechanisms in cells spreading on cultu...
- term:
id: GO:1904237
label: positive regulation of substrate-dependent cell migration, cell
attachment to substrate
evidence_type: IDA
original_reference_id: PMID:25834989
review:
summary: Fibronectin promotes cell migration and attachment. Direct
functional consequence.
action: ACCEPT
reason: Experimental validation (PMID:25834989). Fibronectin directly
mediates cell attachment and promotes migration. While this term is
somewhat redundant with 'cell adhesion' and 'cell-matrix adhesion', it
accurately captures a direct functional consequence. Accept.
additional_reference_ids:
- PMID:25834989
supported_by:
- reference_id: PMID:25834989
supporting_text: In addition, FBLN1C1 stimulated fibulin1 deposition in PF
and COPD fibroblasts, and augmented fibronectin and perlecan deposition
in all three groups
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:10788510
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:10788510
supporting_text: The fibronectin-binding MSCRAMM FnbpA of Staphylococcus
aureus is a bifunctional protein that also binds to fibrinogen
- term:
id: GO:0051702
label: biological process involved in interaction with symbiont
evidence_type: IDA
original_reference_id: PMID:12167537
review:
summary: Fibronectin serves as an adhesion target for bacterial pathogens.
Host-pathogen interaction context.
action: KEEP_AS_NON_CORE
reason: Multiple experimental validations (PMID:12167537, PMID:19429745,
PMID:12421310) show bacterial pathogens bind fibronectin. While
biologically important, this represents pathogen exploitation of
fibronectin's adhesive properties. Not a core host function but rather
pathogen binding to ECM. Mark as non-core.
supported_by:
- reference_id: PMID:12167537
supporting_text: Several regions of the repeat domain of the
Staphylococcus caprae autolysin, AtlC, are involved in fibronectin
binding
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:16677310
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:16677310
supporting_text: tb malate synthase (MS) has adapted to function as an
adhesin which binds to laminin and fibronectin
- term:
id: GO:0051702
label: biological process involved in interaction with symbiont
evidence_type: IDA
original_reference_id: PMID:19429745
review:
summary: Fibronectin serves as an adhesion target for bacterial pathogens.
Host-pathogen interaction context.
action: KEEP_AS_NON_CORE
reason: Multiple experimental validations (PMID:12167537, PMID:19429745,
PMID:12421310) show bacterial pathogens bind fibronectin. While
biologically important, this represents pathogen exploitation of
fibronectin's adhesive properties. Not a core host function but rather
pathogen binding to ECM. Mark as non-core.
supported_by:
- reference_id: PMID:19429745
supporting_text: 'Enolase from Paracoccidioides brasiliensis: isolation and
identification as a fibronectin-binding protein'
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:19220903
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:19220903
supporting_text: Surface displaced alfa-enolase of Lactobacillus plantarum
is a fibronectin binding protein
- term:
id: GO:0051702
label: biological process involved in interaction with symbiont
evidence_type: IDA
original_reference_id: PMID:12421310
review:
summary: Fibronectin serves as an adhesion target for bacterial pathogens.
Host-pathogen interaction context.
action: KEEP_AS_NON_CORE
reason: Multiple experimental validations (PMID:12167537, PMID:19429745,
PMID:12421310) show bacterial pathogens bind fibronectin. While
biologically important, this represents pathogen exploitation of
fibronectin's adhesive properties. Not a core host function but rather
pathogen binding to ECM. Mark as non-core.
supported_by:
- reference_id: PMID:12421310
supporting_text: Elongation factor Tu and E1 beta subunit of pyruvate
dehydrogenase complex act as fibronectin binding proteins in Mycoplasma
pneumoniae
- term:
id: GO:0001755
label: neural crest cell migration
evidence_type: IDA
original_reference_id: PMID:26571399
review:
summary: Fibronectin mediates neural crest cell migration during
development. Specific developmental context.
action: KEEP_AS_NON_CORE
reason: Experimentally validated (PMID:26571399) - neural crest cells
migrate along fibronectin-rich pathways. However, this represents a
specific developmental context. The core function is ECM-mediated cell
adhesion and migration. Mark as non-core.
additional_reference_ids:
- PMID:26571399
supported_by:
- reference_id: PMID:26571399
supporting_text: This appears to be due to the fact that collagen VI is a
poor substratum for supporting eNCC migration and can even interfere
with the migration-promo...
- term:
id: GO:0048484
label: enteric nervous system development
evidence_type: IDA
original_reference_id: PMID:26571399
review:
summary: Fibronectin supports enteric nervous system development through
neural crest cell migration. Specific developmental context.
action: KEEP_AS_NON_CORE
reason: Experimentally validated (PMID:26571399) in Hirschsprung's disease
model. Fibronectin provides migration substrate for enteric neural crest
cells. However, this is a specific developmental context. Core function is
ECM organization and cell migration support. Mark as non-core.
additional_reference_ids:
- PMID:26571399
supported_by:
- reference_id: PMID:26571399
supporting_text: This appears to be due to the fact that collagen VI is a
poor substratum for supporting eNCC migration and can even interfere
with the migration-promo...
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:26627825
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:26627825
supporting_text: 2015 Dec 1. Extracellular Fibrinogen-binding Protein
(Efb) from Staphylococcus aureus Inhibits the Formation of
Platelet-Leukocyte Complexes.
- term:
id: GO:0001932
label: regulation of protein phosphorylation
evidence_type: IDA
original_reference_id: PMID:11792823
review:
summary: Fibronectin-integrin interactions regulate protein phosphorylation
through FAK and other kinases.
action: ACCEPT
reason: Fibronectin binding triggers phosphorylation cascades via FAK, Src,
and downstream kinases. Experimental validation (PMID:11792823). This is a
direct consequence of integrin engagement. Accept.
additional_reference_ids:
- PMID:11792823
supported_by:
- reference_id: PMID:11792823
supporting_text: Fibulin-1 suppression of fibronectin-regulated cell
adhesion and motility
- term:
id: GO:0010628
label: positive regulation of gene expression
evidence_type: IDA
original_reference_id: PMID:25834989
review:
summary: Fibronectin-integrin signaling can regulate gene expression.
Indirect regulatory function.
action: KEEP_AS_NON_CORE
reason: Experimental validation (PMID:25834989). Fibronectin signaling
influences gene expression through downstream pathways. However, this is
an indirect effect. Core functions are receptor binding and signaling
initiation. Mark as non-core.
additional_reference_ids:
- PMID:25834989
supported_by:
- reference_id: PMID:25834989
supporting_text: In addition, FBLN1C1 stimulated fibulin1 deposition in PF
and COPD fibroblasts, and augmented fibronectin and perlecan deposition
in all three groups
- term:
id: GO:0048146
label: positive regulation of fibroblast proliferation
evidence_type: IDA
original_reference_id: PMID:25834989
review:
summary: Fibronectin promotes fibroblast proliferation. Cell-type-specific
regulatory function.
action: KEEP_AS_NON_CORE
reason: Experimental validation (PMID:25834989). Fibronectin supports
fibroblast proliferation through integrin signaling. However, this is a
cell-type-specific regulatory function. Core functions are adhesion and
receptor engagement. Mark as non-core.
additional_reference_ids:
- PMID:25834989
supported_by:
- reference_id: PMID:25834989
supporting_text: In addition, FBLN1C1 stimulated fibulin1 deposition in PF
and COPD fibroblasts, and augmented fibronectin and perlecan deposition
in all three groups
- term:
id: GO:0071635
label: negative regulation of transforming growth factor beta production
evidence_type: IDA
original_reference_id: PMID:25834989
review:
summary: Fibronectin can modulate TGF-beta production. Context-specific
regulatory function.
action: KEEP_AS_NON_CORE
reason: Experimental validation (PMID:25834989). Fibronectin interactions
negatively regulate TGF-beta production in fibrosis context. However, this
is a specific regulatory function in particular disease contexts. Core
functions are ECM organization and receptor binding. Mark as non-core.
additional_reference_ids:
- PMID:25834989
supported_by:
- reference_id: PMID:25834989
supporting_text: In addition, FBLN1C1 stimulated fibulin1 deposition in PF
and COPD fibroblasts, and augmented fibronectin and perlecan deposition
in all three groups
- term:
id: GO:0005178
label: integrin binding
evidence_type: IPI
original_reference_id: PMID:11792823
review:
summary: Integrin binding is a core molecular function mediated by RGD motif
and other sites.
action: ACCEPT
reason: Fibronectin's RGD motif in FN-III10 binds integrin alpha5beta1.
Additional sites engage alpha4beta1, alphaVbeta3, and others. Extensively
validated by structural and biochemical studies. Core function. Accept.
supported_by:
- reference_id: PMID:11792823
supporting_text: Fibulin-1 suppression of fibronectin-regulated cell
adhesion and motility
- term:
id: GO:0070372
label: regulation of ERK1 and ERK2 cascade
evidence_type: IDA
original_reference_id: PMID:11792823
review:
summary: Fibronectin-integrin interactions regulate ERK signaling. Direct
signaling consequence.
action: ACCEPT
reason: Fibronectin engagement regulates ERK1/2 MAPK cascade through
integrin-FAK-MAPK pathway. Experimental validation (PMID:11792823).
Well-established signaling consequence. Accept.
additional_reference_ids:
- PMID:11792823
supported_by:
- reference_id: PMID:11792823
supporting_text: Fibulin-1 suppression of fibronectin-regulated cell
adhesion and motility
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:9278415
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:9278415
supporting_text: The self-association and fibronectin-binding sites of
fibulin-1 map to calcium-binding epidermal growth factor-like domains
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:1400330
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:1400330
supporting_text: Fibulin binds to itself and to the carboxyl-terminal
heparin-binding region of fibronectin
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:10627046
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:10627046
supporting_text: 'The PE-PGRS glycine-rich proteins of Mycobacterium tuberculosis:
a new family of fibronectin-binding proteins'
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:3141278
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:3141278
supporting_text: Characterization of fibronectin-binding antigens released
by Mycobacterium tuberculosis and Mycobacterium bovis BCG
- term:
id: GO:0031012
label: extracellular matrix
evidence_type: IDA
original_reference_id: PMID:1632457
review:
summary: Extracellular matrix is the primary localization of fibronectin.
Core cellular component annotation.
action: ACCEPT
reason: This is the most important cellular component annotation for
fibronectin. Fibronectin is a major structural constituent of the ECM,
assembling into fibrillar networks. Extensively validated across decades
of research. This annotation is accurate and represents core fibronectin
localization.
supported_by:
- reference_id: PMID:1632457
supporting_text: Plasminogen activator inhibitor-1 deposition in the
extracellular matrix of cultured human mesangial cells
- term:
id: GO:0005178
label: integrin binding
evidence_type: IMP
original_reference_id: PMID:24658351
review:
summary: Integrin binding is a core molecular function mediated by RGD motif
and other sites.
action: ACCEPT
reason: Fibronectin's RGD motif in FN-III10 binds integrin alpha5beta1.
Additional sites engage alpha4beta1, alphaVbeta3, and others. Extensively
validated by structural and biochemical studies. Core function. Accept.
supported_by:
- reference_id: PMID:24658351
supporting_text: Structural basis for pure antagonism of integrin αVβ3 by
a high-affinity form of fibronectin
- term:
id: GO:0033622
label: integrin activation
evidence_type: IMP
original_reference_id: PMID:24658351
review:
summary: Fibronectin binding can induce integrin activation (inside-out
signaling). Well-validated function.
action: ACCEPT
reason: Fibronectin engagement can promote integrin activation and
conformational changes that enhance ligand binding. Experimental
validation (PMID:24658351). This is a well-characterized aspect of
integrin-fibronectin interactions. Accept.
additional_reference_ids:
- PMID:24658351
supported_by:
- reference_id: PMID:24658351
supporting_text: Structural basis for pure antagonism of integrin αVβ3 by
a high-affinity form of fibronectin
- term:
id: GO:0034446
label: substrate adhesion-dependent cell spreading
evidence_type: IMP
original_reference_id: PMID:24658351
review:
summary: Fibronectin substrates promote cell spreading through integrin
engagement. Direct functional consequence.
action: ACCEPT
reason: Cell spreading on fibronectin substrates is a direct and measurable
consequence of integrin-mediated adhesion. Well-validated experimentally
(PMID:19126672, PMID:24658351, PMID:16236823). This represents a core
adhesive function of fibronectin. Accept.
supported_by:
- reference_id: PMID:24658351
supporting_text: Structural basis for pure antagonism of integrin αVβ3 by
a high-affinity form of fibronectin
- term:
id: GO:0035987
label: endodermal cell differentiation
evidence_type: IDA
original_reference_id: PMID:23154389
review:
summary: Fibronectin-integrin interactions regulate endodermal
differentiation in ES cells. Specific developmental context.
action: KEEP_AS_NON_CORE
reason: Experimental validation (PMID:23154389) in human embryonic stem
cells. Fibronectin-ECM interactions regulate differentiation. However,
this represents a specific developmental context. Core functions are ECM
organization and integrin binding. Mark as non-core.
additional_reference_ids:
- PMID:23154389
supported_by:
- reference_id: PMID:23154389
supporting_text: From this screen we identified fibronectin (FN) and
vitronectin (VTN) as ECMP components that promoted DE differentiation
- term:
id: GO:0070062
label: extracellular exosome
evidence_type: HDA
original_reference_id: PMID:23533145
review:
summary: Fibronectin is found in extracellular exosomes. Minor localization
annotation.
action: KEEP_AS_NON_CORE
reason: Multiple proteomic studies (PMID:23533145, PMID:21276792,
PMID:19056867) detect fibronectin in exosomes. While valid, exosomes
represent a minor and specialized localization compared to ECM and
extracellular space. This is peripheral to core fibronectin biology. Mark
as non-core.
supported_by:
- reference_id: PMID:23533145
supporting_text: 2013 Apr 23. In-depth proteomic analyses of exosomes
isolated from expressed prostatic secretions in urine.
- term:
id: GO:0070062
label: extracellular exosome
evidence_type: IDA
original_reference_id: PMID:21276792
review:
summary: Fibronectin is found in extracellular exosomes. Minor localization
annotation.
action: KEEP_AS_NON_CORE
reason: Multiple proteomic studies (PMID:23533145, PMID:21276792,
PMID:19056867) detect fibronectin in exosomes. While valid, exosomes
represent a minor and specialized localization compared to ECM and
extracellular space. This is peripheral to core fibronectin biology. Mark
as non-core.
supported_by:
- reference_id: PMID:21276792
supporting_text: Epub 2011 Jan 26. Morphologic and proteomic
characterization of exosomes released by cultured extravillous
trophoblast cells.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:11773026
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:11773026
supporting_text: In vitro localization of TIGR/MYOC in trabecular meshwork
extracellular matrix and binding to fibronectin
- term:
id: GO:0002020
label: protease binding
evidence_type: IPI
original_reference_id: PMID:22952693
review:
summary: Fibronectin binds and is cleaved by proteases. Valid molecular
interaction.
action: ACCEPT
reason: Experimental validation (PMID:22952693). Fibronectin binds various
proteases including cathepsins and MMPs, and is a substrate for
proteolytic remodeling. While somewhat general, this represents real
molecular interactions important for ECM remodeling. Accept.
additional_reference_ids:
- PMID:22952693
supported_by:
- reference_id: PMID:22952693
supporting_text: Cleavage of nidogen-1 by cathepsin S impairs its binding
to basement membrane partners.
- term:
id: GO:0072562
label: blood microparticle
evidence_type: HDA
original_reference_id: PMID:22516433
review:
summary: Fibronectin detected in blood microparticles. Minor localization
annotation.
action: KEEP_AS_NON_CORE
reason: Proteomic analysis (PMID:22516433) detects fibronectin in blood
microparticles. While valid, this represents a minor and specialized
localization. Plasma fibronectin is the relevant pool, microparticles are
peripheral. Mark as non-core.
additional_reference_ids:
- PMID:22516433
supported_by:
- reference_id: PMID:22516433
supporting_text: Epub 2012 Apr 10. Proteomic analysis of microvesicles
from plasma of healthy donors reveals high individual variability.
- term:
id: GO:0070062
label: extracellular exosome
evidence_type: HDA
original_reference_id: PMID:19056867
review:
summary: Fibronectin is found in extracellular exosomes. Minor localization
annotation.
action: KEEP_AS_NON_CORE
reason: Multiple proteomic studies (PMID:23533145, PMID:21276792,
PMID:19056867) detect fibronectin in exosomes. While valid, exosomes
represent a minor and specialized localization compared to ECM and
extracellular space. This is peripheral to core fibronectin biology. Mark
as non-core.
supported_by:
- reference_id: PMID:19056867
supporting_text: 2008 Dec 3. Large-scale proteomics and phosphoproteomics
of urinary exosomes.
- term:
id: GO:0005178
label: integrin binding
evidence_type: IDA
original_reference_id: PMID:19738201
review:
summary: Integrin binding is a core molecular function mediated by RGD motif
and other sites.
action: ACCEPT
reason: Fibronectin's RGD motif in FN-III10 binds integrin alpha5beta1.
Additional sites engage alpha4beta1, alphaVbeta3, and others. Extensively
validated by structural and biochemical studies. Core function. Accept.
supported_by:
- reference_id: PMID:19738201
supporting_text: Quantitative, comparative analyses of the proteomes of
two receptor-ligand pairs, alpha(4)beta(1)-vascular cell adhesion
molecule-1 and alpha(5)beta(1...
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:16336961
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:16336961
supporting_text: A novel role for fibronectin type I domain in the
regulation of human hematopoietic cell adhesiveness through binding to
follistatin domains of FLRG a...
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:12225811
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:12225811
supporting_text: Matrix-matrix interaction of cartilage oligomeric matrix
protein and fibronectin
- term:
id: GO:0034446
label: substrate adhesion-dependent cell spreading
evidence_type: IDA
original_reference_id: PMID:16236823
review:
summary: Fibronectin substrates promote cell spreading through integrin
engagement. Direct functional consequence.
action: ACCEPT
reason: Cell spreading on fibronectin substrates is a direct and measurable
consequence of integrin-mediated adhesion. Well-validated experimentally
(PMID:19126672, PMID:24658351, PMID:16236823). This represents a core
adhesive function of fibronectin. Accept.
supported_by:
- reference_id: PMID:16236823
supporting_text: Field emission scanning electron microscopy and
immunohistochemistry showed that the endothelial cells spread on
laminin-10 and formed fibronectin-pos...
- term:
id: GO:0005577
label: fibrinogen complex
evidence_type: IDA
original_reference_id: PMID:3997886
review:
summary: Fibronectin binds fibrin/fibrinogen forming complexes important for
provisional matrix and wound healing.
action: ACCEPT
reason: Fibronectin contains fibrin-binding sites at N-terminal and
C-terminal regions. Interaction with fibrin(ogen) is critical for
provisional matrix formation during hemostasis and wound healing.
Experimentally validated. Core molecular interaction. Accept.
supported_by:
- reference_id: PMID:3997886
supporting_text: In contrast, incorporation of 125I-fibronectin into clots
was dependent upon cross-linking
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:11956183
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:11956183
supporting_text: The type XIII collagen ectodomain is a 150-nm rod and
capable of binding to fibronectin, nidogen-2, perlecan, and heparin
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:15165854
review:
summary: This annotation documents a protein-protein interaction but uses
the uninformative term 'protein binding'.
action: REMOVE
reason: Per GO curation guidelines, 'protein binding' (GO:0005515) is too
vague. While fibronectin binds many proteins (collagens, integrins,
bacterial adhesins, ECM components), these should use more specific terms
like 'integrin binding' (GO:0005178), 'collagen binding' (GO:0005518), or
'proteoglycan binding' (GO:0043394). Remove in favor of specific molecular
function annotations.
supported_by:
- reference_id: PMID:15165854
supporting_text: Recombinant collagen XVI interacts with fibrillin-1 and
with fibronectin indicating multiple molecular interactions in which
this ubiquitously express...
- term:
id: GO:0005793
label: endoplasmic reticulum-Golgi intermediate compartment
evidence_type: IDA
original_reference_id: PMID:15308636
review:
summary: Fibronectin transits through ERGIC during secretion. Minor but
accurate localization.
action: ACCEPT
reason: As a secreted glycoprotein, fibronectin traffics through ERGIC
during secretion. Experimental evidence (PMID:15308636). While transient
rather than functional location, it is accurate for the secretory pathway.
Accept.
additional_reference_ids:
- PMID:15308636
supported_by:
- reference_id: PMID:15308636
supporting_text: 2004 Aug 11. Proteomics of endoplasmic reticulum-Golgi
intermediate compartment (ERGIC) membranes from brefeldin A-treated
HepG2 cells identifies ERGIC-32, a new cycling protein that interacts
with human Erv46.
- term:
id: GO:0005576
label: extracellular region
evidence_type: NAS
original_reference_id: PMID:14718574
review:
summary: Fibronectin is extracellular, but more specific terms (ECM,
extracellular space) are preferable.
action: MODIFY
reason: While factually correct, GO:0005576 is too general. Replace with
GO:0031012 (extracellular matrix) which better captures fibronectin's
structural role as an ECM component.
proposed_replacement_terms:
- id: GO:0031012
label: extracellular matrix
supported_by:
- reference_id: PMID:14718574
supporting_text: 'Epub 2004 Jan 12. The human plasma proteome: a nonredundant
list developed by combination of four separate sources.'
- term:
id: GO:0005518
label: collagen binding
evidence_type: NAS
original_reference_id: PMID:3024962
review:
summary: Collagen binding is a core molecular function of fibronectin
mediated by gelatin-binding domains.
action: ACCEPT
reason: Fibronectin binds collagen types I-V and VII through gelatin-binding
domains (FN-II repeats). This interaction organizes collagen fibrils and
is essential for ECM architecture. Extensively validated (PMID:3024962 NAS
and multiple other studies). Core molecular function.
additional_reference_ids:
- PMID:3024962
- Reactome:R-HSA-2327733
supported_by:
- reference_id: PMID:3024962
supporting_text: Mapping the collagen-binding site of human fibronectin by
expression in Escherichia coli
- term:
id: GO:0007155
label: cell adhesion
evidence_type: NAS
original_reference_id: PMID:1423622
review:
summary: Cell adhesion is a core function of fibronectin mediating
attachment to ECM.
action: ACCEPT
reason: Cell adhesion is a quintessential fibronectin function. Through
integrin binding, fibronectin mediates cell attachment, spreading, and
migration. NAS evidence from PMID:1423622 (structural study of RGD
domain). Core function. Accept.
additional_reference_ids:
- PMID:1423622
supported_by:
- reference_id: PMID:1423622
supporting_text: 'The three-dimensional structure of the tenth type III module
of fibronectin: an insight into RGD-mediated interactions'
- term:
id: GO:0008201
label: heparin binding
evidence_type: NAS
original_reference_id: PMID:10075919
review:
summary: Heparin binding through three distinct heparin-binding domains.
Core molecular function.
action: ACCEPT
reason: Fibronectin contains three heparin-binding sites (Hep I, II, III).
Extensively characterized structurally and functionally (PMID:10075919
NAS). Important for matrix assembly and ECM organization. Core molecular
function. Accept.
additional_reference_ids:
- PMID:10075919
supported_by:
- reference_id: PMID:10075919
supporting_text: Crystal structure of a heparin- and integrin-binding
segment of human fibronectin
- term:
id: GO:0009611
label: response to wounding
evidence_type: NAS
original_reference_id: PMID:7989369
review:
summary: Fibronectin participates in wound healing through provisional
matrix formation. Specific physiological context.
action: KEEP_AS_NON_CORE
reason: Fibronectin is essential for wound healing, forming provisional
matrix and supporting cell migration. NAS evidence (PMID:7989369)
characterizing fibrin-binding sites. However, wound healing represents a
specific physiological context. Core functions are fibrin binding and ECM
organization. Mark as non-core.
additional_reference_ids:
- PMID:7989369
supported_by:
- reference_id: PMID:7989369
supporting_text: Further characterization of the NH2-terminal
fibrin-binding site on fibronectin
- term:
id: GO:0030198
label: extracellular matrix organization
evidence_type: NAS
review:
summary: Added to align core_functions with existing annotations.
action: NEW
reason: Core function term not present in existing_annotations.
supported_by:
- reference_id: file:human/FN1/FN1-uniprot.txt
supporting_text: Fibronectin binds collagen types I-V and VII, assembling
into fibrillar networks
- term:
id: GO:0070051
label: fibrinogen binding
evidence_type: NAS
review:
summary: Added to align core_functions with existing annotations.
action: NEW
reason: Core function term not present in existing_annotations.
supported_by:
- reference_id: PMID:7989369
supporting_text: Characterization of the NH2-terminal fibrin-binding site
on fibronectin
- term:
id: GO:0007596
label: blood coagulation
evidence_type: NAS
review:
summary: Added to align core_functions with existing annotations.
action: NEW
reason: Core function term not present in existing_annotations.
supported_by:
- reference_id: PMID:7989369
supporting_text: Characterization of the NH2-terminal fibrin-binding site
on fibronectin
core_functions:
- molecular_function:
id: GO:0005178
label: integrin binding
description: Fibronectin binds integrins (alpha5beta1, alpha4beta1,
alphaVbeta3, alphaVbeta1, alphaVbeta6, alpha8beta1) via the RGD motif in
FN-III10 domain, mediating cell adhesion, migration, and signaling at the
cell-matrix interface. This is the primary molecular function enabling
fibronectin's role as a major cell adhesion molecule.
locations:
- id: GO:0031012
label: extracellular matrix
directly_involved_in:
- id: GO:0007160
label: cell-matrix adhesion
- id: GO:0007044
label: cell-substrate junction assembly
supported_by:
- reference_id: PMID:33962943
supporting_text: Structural insights into integrin alpha5beta1 opening by
fibronectin ligand
- reference_id: PMID:24658351
supporting_text: Structural basis for pure antagonism of integrin
alphaVbeta3 by fibronectin
- molecular_function:
id: GO:0005518
label: collagen binding
description: Fibronectin binds collagen types I-V and VII through FN-I
modules, organizing the ECM architecture and coordinating fibrillar network
assembly. This interaction is essential for ECM structural integrity.
locations:
- id: GO:0031012
label: extracellular matrix
directly_involved_in:
- id: GO:0030198
label: extracellular matrix organization
supported_by:
- reference_id: file:human/FN1/FN1-uniprot.txt
supporting_text: Fibronectin binds collagen types I-V and VII, assembling
into fibrillar networks
- molecular_function:
id: GO:0070051
label: fibrinogen binding
description: Fibronectin binds fibrinogen through N-terminal and C-terminal
sites (FN-I modules), playing critical roles in provisional matrix formation
during wound healing and hemostasis. This allows rapid assembly of a
temporary scaffold supporting cell migration and tissue repair.
locations:
- id: GO:0031012
label: extracellular matrix
directly_involved_in:
- id: GO:0007596
label: blood coagulation
supported_by:
- reference_id: PMID:7989369
supporting_text: Characterization of the NH2-terminal fibrin-binding site on
fibronectin
references:
- id: GO_REF:0000024
title: Manual transfer of experimentally-verified manual GO annotation data to
orthologs by curator judgment of sequence similarity.
findings: []
- id: GO_REF:0000033
title: Annotation inferences using phylogenetic trees
findings: []
- id: GO_REF:0000043
title: Gene Ontology annotation based on UniProtKB/Swiss-Prot keyword mapping
findings: []
- id: GO_REF:0000107
title: Automatic transfer of experimentally verified manual GO annotation data
to orthologs using Ensembl Compara.
findings: []
- id: GO_REF:0000117
title: Electronic Gene Ontology annotations created by ARBA machine learning
models
findings: []
- id: GO_REF:0000120
title: Combined Automated Annotation using Multiple IEA Methods.
findings: []
- id: PMID:10075919
title: Crystal structure of a heparin- and integrin-binding segment of human
fibronectin.
findings: []
- id: PMID:10627046
title: 'The PE-PGRS glycine-rich proteins of Mycobacterium tuberculosis: a new family
of fibronectin-binding proteins?'
findings: []
- id: PMID:10788510
title: The fibronectin-binding MSCRAMM FnbpA of Staphylococcus aureus is a
bifunctional protein that also binds to fibrinogen.
findings: []
- id: PMID:11377428
title: Binding of a peptide from a Streptococcus dysgalactiae MSCRAMM to the
N-terminal F1 module pair of human fibronectin involves both modules.
findings: []
- id: PMID:11773026
title: In vitro localization of TIGR/MYOC in trabecular meshwork extracellular
matrix and binding to fibronectin.
findings: []
- id: PMID:11792823
title: Fibulin-1 suppression of fibronectin-regulated cell adhesion and
motility.
findings: []
- id: PMID:11956183
title: The type XIII collagen ectodomain is a 150-nm rod and capable of
binding to fibronectin, nidogen-2, perlecan, and heparin.
findings: []
- id: PMID:12167537
title: Several regions of the repeat domain of the Staphylococcus caprae
autolysin, AtlC, are involved in fibronectin binding.
findings: []
- id: PMID:12225811
title: Matrix-matrix interaction of cartilage oligomeric matrix protein and
fibronectin.
findings: []
- id: PMID:12421310
title: Elongation factor Tu and E1 beta subunit of pyruvate dehydrogenase
complex act as fibronectin binding proteins in Mycoplasma pneumoniae.
findings: []
- id: PMID:12736686
title: Pathogenic bacteria attach to human fibronectin through a tandem
beta-zipper.
findings: []
- id: PMID:1400330
title: Fibulin binds to itself and to the carboxyl-terminal heparin-binding
region of fibronectin.
findings: []
- id: PMID:1423622
title: 'The three-dimensional structure of the tenth type III module of fibronectin:
an insight into RGD-mediated interactions.'
findings: []
- id: PMID:14718574
title: 'The human plasma proteome: a nonredundant list developed by combination
of four separate sources.'
findings: []
- id: PMID:15165854
title: Molecular structure and interaction of recombinant human type XVI
collagen.
findings: []
- id: PMID:15292204
title: BBK32, a fibronectin binding MSCRAMM from Borrelia burgdorferi,
contains a disordered region that undergoes a conformational change on
ligand binding.
findings: []
- id: PMID:15308636
title: Proteomics of endoplasmic reticulum-Golgi intermediate compartment
(ERGIC) membranes from brefeldin A-treated HepG2 cells identifies ERGIC-32,
a new cycling protein that interacts with human Erv46.
findings: []
- id: PMID:16157329
title: Sequential deposition of latent TGF-beta binding proteins (LTBPs)
during formation of the extracellular matrix in human lung fibroblasts.
findings: []
- id: PMID:16236823
title: Laminin-10 and Lutheran blood group glycoproteins in adhesion of human
endothelial cells.
findings: []
- id: PMID:1632457
title: Plasminogen activator inhibitor-1 deposition in the extracellular
matrix of cultured human mesangial cells.
findings: []
- id: PMID:16336961
title: A novel role for fibronectin type I domain in the regulation of human
hematopoietic cell adhesiveness through binding to follistatin domains of
FLRG and follistatin.
findings: []
- id: PMID:16457822
title: CT domain of CCN2/CTGF directly interacts with fibronectin and enhances
cell adhesion of chondrocytes through integrin alpha5beta1.
findings: []
- id: PMID:16677310
title: Mycobacterium tuberculosis malate synthase is a laminin-binding
adhesin.
findings: []
- id: PMID:1747115
title: Interaction of the small proteoglycan decorin with fibronectin.
Involvement of the sequence NKISK of the core protein.
findings: []
- id: PMID:17849409
title: Identification of novel bacterial plasminogen-binding proteins in the
human pathogen Mycobacterium tuberculosis.
findings: []
- id: PMID:17914904
title: Force-induced unfolding of fibronectin in the extracellular matrix of
living cells.
findings: []
- id: PMID:18042364
title: TSG-6 binds via its CUB_C domain to the cell-binding domain of
fibronectin and increases fibronectin matrix assembly.
findings: []
- id: PMID:18160478
title: Novel adhesin from Pasteurella multocida that binds to the
integrin-binding fibronectin FnIII9-10 repeats.
findings: []
- id: PMID:18243143
title: Uteroglobin interacts with the heparin-binding site of fibronectin and
prevents fibronectin-IgA complex formation found in IgA-nephropathy.
findings: []
- id: PMID:18323857
title: NEDD8 acts as a 'molecular switch' defining the functional selectivity
of VHL.
findings: []
- id: PMID:18411296
title: The surface-exposed carboxyl region of Mycoplasma pneumoniae elongation
factor Tu interacts with fibronectin.
findings: []
- id: PMID:18713862
title: Crystal structures of fibronectin-binding sites from Staphylococcus
aureus FnBPA in complex with fibronectin domains.
findings: []
- id: PMID:19056867
title: Large-scale proteomics and phosphoproteomics of urinary exosomes.
findings: []
- id: PMID:19126672
title: Spontaneous phosphoinositide 3-kinase signaling dynamics drive
spreading and random migration of fibroblasts.
findings: []
- id: PMID:19220903
title: Surface displaced alfa-enolase of Lactobacillus plantarum is a
fibronectin binding protein.
findings: []
- id: PMID:19429745
title: 'Enolase from Paracoccidioides brasiliensis: isolation and identification
as a fibronectin-binding protein.'
findings: []
- id: PMID:19542224
title: The first draft of the endostatin interaction network.
findings: []
- id: PMID:19738201
title: Proteomic analysis of integrin-associated complexes identifies RCC2 as
a dual regulator of Rac1 and Arf6.
findings: []
- id: PMID:19826086
title: Fibronectin forms the most extensible biological fibers displaying
switchable force-exposed cryptic binding sites.
findings: []
- id: PMID:19931242
title: The interaction of angiocidin with tissue transglutaminase.
findings: []
- id: PMID:20080707
title: EGF potentiated oncogenesis requires a tissue
transglutaminase-dependent signaling pathway leading to Src activation.
findings: []
- id: PMID:20123964
title: Lipid phosphate phosphatase 3 stabilization of beta-catenin induces
endothelial cell migration and formation of branching point structures.
findings: []
- id: PMID:20541508
title: Zinc induces structural reorganization of gelatin binding domain from
human fibronectin and affects collagen binding.
findings: []
- id: PMID:20551380
title: Proteomics characterization of extracellular space components in the
human aorta.
findings: []
- id: PMID:20875085
title: Functional analysis of a murine monoclonal antibody against the
repetitive region of the fibronectin-binding adhesins fibronectin-binding
protein A and fibronectin-binding protein B from Staphylococcus aureus.
findings: []
- id: PMID:20879998
title: Repeat regions R1 and R2 in the P97 paralogue Mhp271 of Mycoplasma
hyopneumoniae bind heparin, fibronectin and porcine cilia.
findings: []
- id: PMID:21276792
title: Morphologic and proteomic characterization of exosomes released by
cultured extravillous trophoblast cells.
findings: []
- id: PMID:21569203
title: The A domain of fibronectin-binding protein B of Staphylococcus aureus
contains a novel fibronectin binding site.
findings: []
- id: PMID:22261194
title: Proteomics analysis of cardiac extracellular matrix remodeling in a
porcine model of ischemia/reperfusion injury.
findings: []
- id: PMID:22442151
title: 'Transglutaminase-2 interaction with heparin: identification of a heparin
binding site that regulates cell adhesion to fibronectin-transglutaminase-2 matrix.'
findings: []
- id: PMID:22516433
title: Proteomic analysis of microvesicles from plasma of healthy donors
reveals high individual variability.
findings: []
- id: PMID:22952693
title: Cleavage of nidogen-1 by cathepsin S impairs its binding to basement
membrane partners.
findings: []
- id: PMID:23154389
title: Regulation of endodermal differentiation of human embryonic stem cells
through integrin-ECM interactions.
findings: []
- id: PMID:23533145
title: In-depth proteomic analyses of exosomes isolated from expressed
prostatic secretions in urine.
findings: []
- id: PMID:23658023
title: Comparative proteomic analysis of supportive and unsupportive
extracellular matrix substrates for human embryonic stem cell maintenance.
findings: []
- id: PMID:23979707
title: SILAC-based proteomics of human primary endothelial cell morphogenesis
unveils tumor angiogenic markers.
findings: []
- id: PMID:24136289
title: Identification and comparative analysis of hepatitis C virus-host cell
protein interactions.
findings: []
- id: PMID:24388360
title: SERPINA5 inhibits tumor cell migration by modulating the
fibronectin-integrin β1 signaling pathway in hepatocellular carcinoma.
findings: []
- id: PMID:24658351
title: Structural basis for pure antagonism of integrin αVβ3 by a
high-affinity form of fibronectin.
findings: []
- id: PMID:25034023
title: Heparin/heparan sulfate controls fibrillin-1, -2 and -3
self-interactions in microfibril assembly.
findings: []
- id: PMID:25037231
title: Extracellular matrix signatures of human primary metastatic colon
cancers and their metastases to liver.
findings: []
- id: PMID:25290767
title: Structural and functional analysis of the fibronectin-binding protein
FNE from Streptococcus equi spp. equi.
findings: []
- id: PMID:25293691
title: Proteolytic processing of the cilium adhesin MHJ_0194 (P123J ) in
Mycoplasma hyopneumoniae generates a functionally diverse array of cleavage
fragments that bind multiple host molecules.
findings: []
- id: PMID:2531657
title: Lipoprotein(a) binds to fibronectin and has serine proteinase activity
capable of cleaving it.
findings: []
- id: PMID:25416956
title: A proteome-scale map of the human interactome network.
findings: []
- id: PMID:25834989
title: Fibulin1C peptide induces cell attachment and extracellular matrix
deposition in lung fibroblasts.
findings: []
- id: PMID:26571399
title: A collagen VI-dependent pathogenic mechanism for Hirschsprung's
disease.
findings: []
- id: PMID:26627825
title: Extracellular Fibrinogen-binding Protein (Efb) from Staphylococcus
aureus Inhibits the Formation of Platelet-Leukocyte Complexes.
findings: []
- id: PMID:26848503
title: Mapping and Exploring the Collagen-I Proteostasis Network.
findings: []
- id: PMID:27068509
title: 'Extracellular matrix remodelling in response to venous hypertension: proteomics
of human varicose veins.'
findings: []
- id: PMID:27141819
title: Mycobacterial antigen 85 complex (Ag85) as a target for ficolins and
mannose-binding lectin.
findings: []
- id: PMID:27559042
title: Glycoproteomics Reveals Decorin Peptides With Anti-Myostatin Activity
in Human Atrial Fibrillation.
findings: []
- id: PMID:27616280
title: Interactions of surface-displayed glycolytic enzymes of Mycoplasma
pneumoniae with components of the human extracellular matrix.
findings: []
- id: PMID:28327460
title: Comprehensive proteomic characterization of stem cell-derived
extracellular matrices.
findings: []
- id: PMID:28344315
title: Proteomic characterization of human multiple myeloma bone marrow
extracellular matrix.
findings: []
- id: PMID:28675934
title: Characterization of the Extracellular Matrix of Normal and Diseased
Tissues Using Proteomics.
findings: []
- id: PMID:29030641
title: Lubricin binds cartilage proteins, cartilage oligomeric matrix protein,
fibronectin and collagen II at the cartilage surface.
findings: []
- id: PMID:30082873
title: Insights into the structure and dynamics of lysyl oxidase propeptide, a
flexible protein with numerous partners.
findings: []
- id: PMID:3024962
title: Mapping the collagen-binding site of human fibronectin by expression in
Escherichia coli.
findings: []
- id: PMID:3141278
title: Characterization of fibronectin-binding antigens released by
Mycobacterium tuberculosis and Mycobacterium bovis BCG.
findings: []
- id: PMID:31759052
title: Scavenger Receptor Cysteine-Rich domains of Lysyl Oxidase-Like2
regulate endothelial ECM and angiogenesis through non-catalytic scaffolding
mechanisms.
findings: []
- id: PMID:33961781
title: Dual proteome-scale networks reveal cell-specific remodeling of the
human interactome.
findings: []
- id: PMID:33962943
title: Structural insights into integrin α(5)β(1) opening by fibronectin
ligand.
findings: []
- id: PMID:34089617
title: Blockade of checkpoint ILT3/LILRB4/gp49B binding to fibronectin
ameliorates autoimmune disease in BXSB/Yaa mice.
findings: []
- id: PMID:34968453
title: Stabilin-1 mediates beneficial monocyte recruitment and tolerogenic
macrophage programming during CVB3-induced viral myocarditis.
findings: []
- id: PMID:3997886
title: Incorporation of thrombospondin into fibrin clots.
findings: []
- id: PMID:7989369
title: Further characterization of the NH2-terminal fibrin-binding site on
fibronectin.
findings: []
- id: PMID:9269765
title: Novel interaction of apolipoprotein(a) with beta-2 glycoprotein I
mediated by the kringle IV domain.
findings: []
- id: PMID:9278415
title: The self-association and fibronectin-binding sites of fibulin-1 map to
calcium-binding epidermal growth factor-like domains.
findings: []
- id: Reactome:R-HSA-1566981
title: Fibronectin degradation by MMP1, 3, 7, 12, 13, 19, CTSS
findings: []
- id: Reactome:R-HSA-202723
title: Integrin alpha5beta1 binds FN1 dimer
findings: []
- id: Reactome:R-HSA-216050
title: Integrins alpha4beta1, alpha8beta1, alphaVbeta1, alphaVbeta3,
alphaVbeta6 bind Fibronectin matrix
findings: []
- id: Reactome:R-HSA-2327733
title: FN1 binds Collagen types I-V, VII
findings: []
- id: Reactome:R-HSA-2327746
title: FN1 aggregation
findings: []
- id: Reactome:R-HSA-2396337
title: HSPG2 binds FGF2(10-155), Fibronectn matrix, Transthyretin tetramer,
PDGFA homodimer, PDGFB homodimer
findings: []
- id: Reactome:R-HSA-2533950
title: Fibronectin degradation by MMP14
findings: []
- id: Reactome:R-HSA-2537665
title: Fibulin-1 and -2 bind fibronectin
findings: []
- id: Reactome:R-HSA-2545196
title: FN1 dimerizes
findings: []
- id: Reactome:R-HSA-2681681
title: Tenascins C, R, (X, N) bind fibronectin matrix
findings: []
- id: Reactome:R-HSA-2731141
title: Syndecan-1 binds fibronectin
findings: []
- id: Reactome:R-HSA-349593
title: Interaction of integrin alphaIIbbeta3 with Fibronectin
findings: []
- id: Reactome:R-HSA-354066
title: Translocation of PTK2 to Focal complexes
findings: []
- id: Reactome:R-HSA-354073
title: Autophosphorylation of PTK2 at Y397
findings: []
- id: Reactome:R-HSA-354087
title: Recruitment of GRB2 to p-PTK2
findings: []
- id: Reactome:R-HSA-354124
title: Phosphorylation of pPTK2 by SRC
findings: []
- id: Reactome:R-HSA-354149
title: Interaction of integrin alphaIIb beta3 with Fibrinogen
findings: []
- id: Reactome:R-HSA-354165
title: Interaction of SOS with GRB2 bound to FADK1
findings: []
- id: Reactome:R-HSA-372693
title: Phosphorylation of BCAR1 by SRC-PTK2 complex
findings: []
- id: Reactome:R-HSA-372697
title: Crk binding to p130cas
findings: []
- id: Reactome:R-HSA-372705
title: Recruitment of BCAR1 to PTK2 complex
findings: []
- id: Reactome:R-HSA-377640
title: Autophosphorylation of SRC
findings: []
- id: Reactome:R-HSA-377641
title: Clustering of Integrin alphaIIb beta3 complexes
findings: []
- id: Reactome:R-HSA-377643
title: Dephosphorylation of inactive SRC by PTPB1
findings: []
- id: Reactome:R-HSA-377644
title: Release of CSK from SRC
findings: []
- id: Reactome:R-HSA-3785684
title: Fibronectin degradation by CTSG
findings: []
- id: Reactome:R-HSA-3788061
title: Fibronectin degradation by ADAM8
findings: []
- id: Reactome:R-HSA-429415
title: SYK binds to integrin alphaIIb beta3
findings: []
- id: Reactome:R-HSA-429441
title: SYK activation by SRC
findings: []
- id: Reactome:R-HSA-481007
title: Exocytosis of platelet alpha granule contents
findings: []
- id: Reactome:R-HSA-6785895
title: Expression of IL4, IL13-upregulated extracellular proteins
findings: []
- id: Reactome:R-HSA-8952289
title: FAM20C phosphorylates FAM20C substrates
findings: []
- id: Reactome:R-HSA-9624017
title: p-SHC1 binds integrin alpha5beta1:fibronectin
findings: []
- id: Reactome:R-HSA-9638552
title: SfaS binds the fibronectin matrix
findings: []
- id: Reactome:R-HSA-9700131
title: ALK mutants bind type I TKIs
findings: []
- id: Reactome:R-HSA-9700179
title: Ligand-independent dimerization of ALK fusions
findings: []
- id: Reactome:R-HSA-9700181
title: Autophosphorylation of ALK fusions
findings: []
- id: Reactome:R-HSA-9700190
title: ALK mutants bind SHC
findings: []
- id: Reactome:R-HSA-9700193
title: ALK mutants phosphorylate SHC1
findings: []
- id: Reactome:R-HSA-9712078
title: ALK mutants bind PI3KR1
findings: []
- id: Reactome:R-HSA-9712079
title: ALK mutants bind STAT3
findings: []
- id: Reactome:R-HSA-9712083
title: ALK mutants bind PI3KCA
findings: []
- id: Reactome:R-HSA-9712084
title: PI3K synthesizes PIP3 downstream of ALK mutants
findings: []
- id: Reactome:R-HSA-9712085
title: ALK mutants phosphorylate STAT3
findings: []
- id: Reactome:R-HSA-9724099
title: ALK mutants:p-3Y SHC binds GRB2
findings: []
- id: Reactome:R-HSA-9850958
title: pY-STAT3 dimer translocates to the nucleus downstream of ALK mutants
findings: []
- id: Reactome:R-HSA-9865226
title: PP2A dephosphorylates serine-127 of YAP1
findings: []
- id: Reactome:R-HSA-9932034
title: CsgA binds the fibronectin matrix
findings: []
- id: file:human/FN1/FN1-deep-research-falcon.md
title: Deep research report for FN1
findings: []
- id: file:human/FN1/FN1-uniprot.txt
title: UniProt record for FN1 (P02751)
findings: []
alternative_products:
- name: '15'
id: P02751-15
description: >-
The canonical plasma fibronectin isoform. Secreted by hepatocytes into blood.
LACKS both
EDA (EIIIA) and EDB (EIIIB) alternatively spliced domains. Soluble dimer that
circulates
in plasma. Most abundant form in adults. GO annotations for "blood microparticle"
and
"extracellular matrix organization" typically refer to this form.
- name: '1'
id: P02751-1
sequence_note: VSP_060347
description: >-
A cellular fibronectin isoform. Contains V region variation. Cellular FN isoforms
are
produced by fibroblasts and deposited in tissue extracellular matrix.
- name: 2 (MSF-FN70, Migration stimulation factor FN70)
id: P02751-2
sequence_note: VSP_060343, VSP_060344, VSP_060345
description: >-
A truncated 70 kDa form called Migration Stimulation Factor (MSF-FN70). Secreted
by
fetal and tumor fibroblasts. Has distinct bioactivity promoting cell migration.
Important
in tumor microenvironment.
- name: 3 (V89)
id: P02751-3
sequence_note: VSP_060347, VSP_060353
description: >-
An isoform containing EDB domain and V89 variant. Cellular fibronectin with
embryonic/
wound healing expression pattern.
- name: 4 (Fibronectin III-15X)
id: P02751-4
sequence_note: VSP_060347, VSP_060351, VSP_060354,
description: >-
An isoform with variation in type III domain 15. Less well characterized.
- name: 5 (Fibronectin (V+I-10)-)
id: P02751-5
sequence_note: VSP_060347, VSP_060351, VSP_060356
description: >-
An isoform lacking type I domain 10 but containing V region. Domain deletion
isoform.
- name: 6 (Fibronectin (V+III-15)-)
id: P02751-6
sequence_note: VSP_060347, VSP_060350
description: >-
An isoform lacking type III domain 15 but containing V region. Domain deletion
isoform.
- name: 7 (Fibronectin containing EDB domain)
id: P02751-7
sequence_note: VSP_060353
description: >-
CELLULAR FIBRONECTIN containing the EDB (EIIIB) alternatively spliced domain.
EDB+ FN is
an ONCOFETAL ANTIGEN - expressed during embryogenesis and wound healing but
absent in
normal adult tissues. Re-expressed in tumors and used as cancer biomarker and
target for
antibody-drug conjugates. Distinct from plasma FN which lacks EDB.
- name: 8 (Fibronectin not containing EDA domain)
id: P02751-8
sequence_note: VSP_060347, VSP_060349
description: >-
An isoform lacking the EDA (EIIIA) domain. May contain other variations. Intermediate
between full cellular FN and plasma FN.
- name: 9 (Fibronectin not containing EDA and EDB domains and)
id: P02751-9
sequence_note: VSP_060347, VSP_060349, VSP_060352,
description: >-
An isoform lacking both EDA and EDB domains, similar to plasma FN pattern but
with other
sequence variations. Represents the EDA-/EDB- cellular FN form.
- name: '10'
id: P02751-10
sequence_note: VSP_060347, VSP_060349, VSP_060351
description: >-
A less characterized isoform lacking EDA domain with additional variations.
- name: 11 (Fibronectin containing EDB domain, exon x+2)
id: P02751-11
sequence_note: VSP_060348
description: >-
CELLULAR FIBRONECTIN containing EDB domain with additional exon variation. Oncofetal
antigen expressed in embryogenesis, wound healing, and tumors.
- name: '12'
id: P02751-12
sequence_note: VSP_060346, VSP_060349, VSP_060352,
description: >-
A less characterized isoform. Functional role not well established.
- name: '13'
id: P02751-13
sequence_note: VSP_060349, VSP_060351
description: >-
A less characterized isoform lacking EDA domain. Functional role not well established.
- name: '14'
id: P02751-14
sequence_note: VSP_060347, VSP_060349, VSP_060353
description: >-
An isoform containing EDB domain but lacking EDA. Oncofetal antigen pattern.
- name: 16 (Migration stimulation factor, MSF)
id: P02751-16
sequence_note: VSP_060344, VSP_060345
description: >-
Migration Stimulation Factor (MSF). A truncated bioactive form that promotes
cell
migration. Produced by fetal fibroblasts and some tumors. Has distinct functions
from
full-length fibronectin in promoting motility.
- name: '17'
id: P02751-17
sequence_note: VSP_060347, VSP_060352, VSP_060353
description: >-
An isoform containing EDB domain. Likely has oncofetal expression pattern similar
to
other EDB+ isoforms.