CACYBP (Calcyclin-Binding Protein; also known as SIP, Siah-Interacting Protein, and S100A6-binding protein) is a small nucleocytoplasmic adaptor protein that acts as a molecular bridge in a Siah1/Siah2-based, SKP1-containing E3 ubiquitin ligase complex. Through an N-terminal dimerization domain that binds Siah1 and a C-terminal domain that binds SKP1, it scaffolds substrate and the E2 enzyme into apposition, enabling ubiquitination and proteasomal degradation of target proteins, most notably beta-catenin (CTNNB1) in a p53-responsive pathway. CACYBP binds proteins of the S100 family (calcyclin/S100A6, S100A1, S100B, S100P, S100A12) in a calcium-dependent manner, linking calcium signaling to this ubiquitination machinery, and it forms homodimers. It is found in the cytoplasm at low calcium and redistributes between cytoplasm and nucleus upon calcium increase and certain stimuli.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
|
GO:0005634
nucleus
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: Nuclear localization is supported; CACYBP redistributes to the nucleus upon calcium increase and stimulation, consistent with its role in degradation of nuclear/cytoplasmic substrates.
Reason: CACYBP is documented in the nucleus and cytoplasm, with calcium-dependent nuclear redistribution.
Supporting Evidence:
file:human/CACYBP/CACYBP-uniprot.txt
it localizes in both the nucleus and cytoplasm
|
|
GO:0019005
SCF ubiquitin ligase complex
|
IBA
GO_REF:0000033 |
MARK AS OVER ANNOTATED |
Summary: The Siah1-SIP-Skp1-Ebi complex CACYBP participates in is a SIAH1 RING-finger E3 ligase, not a canonical SCF (SKP1-Cullin1-F-box) complex - it shares SKP1 and an F-box subunit but lacks the defining cullin scaffold. The specific complex term GO:0030877 (beta-catenin destruction complex) is already accepted for this gene with IDA evidence, so the SCF complex assignment is a phylogenetic over-transfer from SKP1/F-box component sharing.
Reason: The Siah1-based E3 complex is non-cullin and therefore not an SCF complex as defined by GO:0019005, even though it shares SKP1 and an F-box subunit. The more specific GO:0030877 (beta-catenin destruction complex) annotation already captures the actual complex membership accurately.
Supporting Evidence:
PMID:16085652
The E3 complex comprises, in addition to Siah1, Siah-interacting protein (SIP), the adaptor protein Skp1, and the F-box protein Ebi
|
|
GO:0031625
ubiquitin protein ligase binding
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: CACYBP binds the RING E3 ligases SIAH1/SIAH2 directly, a core molecular function underlying its bridging role.
Reason: Direct interaction of CACYBP/SIP with Siah1 is structurally characterized and is central to assembly of the beta-catenin-destruction E3 complex.
Supporting Evidence:
PMID:16085652
SIP engages Siah1 by means of two elements
|
|
GO:0060090
molecular adaptor activity
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: CACYBP serves as a molecular bridge/adaptor in ubiquitin E3 complexes, bringing substrate and E2 into apposition; this is its core molecular function.
Reason: CACYBP scaffolds Siah1 and Skp1 and provides the surface that brings substrate and the E2 enzyme together.
Supporting Evidence:
PMID:16085652
this surface provides the scaffold for bringing substrate and the E2 enzyme into apposition in the functional complex
|
|
GO:0007507
heart development
|
IBA
GO_REF:0000033 |
MARK AS OVER ANNOTATED |
Summary: Heart development is a broad developmental process not supported by direct mechanistic evidence for human CACYBP; the protein's documented role is as an E3 ligase adaptor.
Reason: No direct evidence links CACYBP to heart development as a core function; this appears to be a phylogenetic/orthology-based broad transfer.
|
|
GO:0005634
nucleus
|
IEA
GO_REF:0000044 |
ACCEPT |
Summary: Nuclear localization is supported by direct subcellular localization data.
Reason: CACYBP localizes to the nucleus, especially after calcium increase.
Supporting Evidence:
file:human/CACYBP/CACYBP-uniprot.txt
it localizes in both the nucleus and cytoplasm
|
|
GO:0005737
cytoplasm
|
IEA
GO_REF:0000120 |
ACCEPT |
Summary: Cytoplasmic localization is well supported; CACYBP is cytoplasmic at low calcium concentrations.
Reason: Direct localization data place CACYBP in the cytoplasm.
Supporting Evidence:
file:human/CACYBP/CACYBP-uniprot.txt
Cytoplasmic at low calcium
|
|
GO:0015631
tubulin binding
|
IEA
GO_REF:0000002 |
MARK AS OVER ANNOTATED |
Summary: Tubulin binding is an InterPro-based electronic inference without direct human experimental support; cytoskeletal roles are reported but not as a clear core molecular function.
Reason: No direct experimental evidence in the cached literature supports tubulin binding as a core CACYBP function; it is an automated domain-based transfer.
|
|
GO:0031625
ubiquitin protein ligase binding
|
IEA
GO_REF:0000120 |
ACCEPT |
Summary: CACYBP binds the E3 ligase Siah1 directly; core molecular function (consistent with the IBA annotation).
Reason: Direct Siah1 interaction is structurally established.
Supporting Evidence:
PMID:16085652
SIP engages Siah1 by means of two elements
|
|
GO:0044548
S100 protein binding
|
IEA
GO_REF:0000002 |
ACCEPT |
Summary: Calcium-dependent binding to S100 family proteins (calcyclin/S100A6 and others) is the basis of the protein's name and a core molecular function linking calcium signaling to its ubiquitination machinery.
Reason: CACYBP interacts with multiple S100 proteins in a calcium-dependent manner.
Supporting Evidence:
file:human/CACYBP/CACYBP-uniprot.txt
Interacts with proteins of the S100 family S100A1, S100A6, S100B, S100P and S100A12 in a calcium-dependent manner
|
|
GO:0005515
protein binding
|
IPI
PMID:25036637 A quantitative chaperone interaction network reveals the arc... |
MARK AS OVER ANNOTATED |
Summary: Generic protein binding from a high-throughput chaperone interaction (LUMIER) network; uninformative.
Reason: Bare protein binding does not convey a specific CACYBP molecular function.
|
|
GO:0005515
protein binding
|
IPI
PMID:31837246 High-throughput competitive fluorescence polarization assay ... |
MARK AS OVER ANNOTATED |
Summary: The underlying data are S100 family interaction profiling, but the GO term used is generic protein binding; S100 protein binding is the informative term.
Reason: Bare protein binding is uninformative; the specific S100 binding is captured by GO:0044548.
|
|
GO:0005515
protein binding
|
IPI
PMID:31980649 Extensive rewiring of the EGFR network in colorectal cancer ... |
MARK AS OVER ANNOTATED |
Summary: Generic protein binding from an EGFR-network interactome study; uninformative.
Reason: Bare protein binding from a high-throughput screen does not identify a core CACYBP function.
|
|
GO:0005515
protein binding
|
IPI
PMID:33961781 Dual proteome-scale networks reveal cell-specific remodeling... |
MARK AS OVER ANNOTATED |
Summary: Generic protein binding from the BioPlex proteome-scale interactome; uninformative.
Reason: Bare protein binding is too general to represent CACYBP function.
|
|
GO:0005515
protein binding
|
IPI
PMID:36115835 Quantitative fragmentomics allow affinity mapping of interac... |
MARK AS OVER ANNOTATED |
Summary: Generic protein binding from a PDZ-affinity fragmentomics interactome; uninformative.
Reason: Bare protein binding does not convey a specific CACYBP molecular function.
|
|
GO:0005641
nuclear envelope lumen
|
IEA
GO_REF:0000107 |
MARK AS OVER ANNOTATED |
Summary: Nuclear envelope lumen is an orthology-transferred localization with no direct support; inconsistent with the documented nucleoplasmic/cytoplasmic distribution.
Reason: An automated Ensembl Compara transfer not supported by direct human localization evidence.
|
|
GO:0007507
heart development
|
IEA
GO_REF:0000107 |
MARK AS OVER ANNOTATED |
Summary: Heart development is a broad orthology-transferred process without direct mechanistic support for human CACYBP.
Reason: Automated transfer; CACYBP's core role is as an E3 ligase adaptor, not a defined cardiac developmental factor.
|
|
GO:0019005
SCF ubiquitin ligase complex
|
IEA
GO_REF:0000107 |
MARK AS OVER ANNOTATED |
Summary: As for the IBA SCF complex annotation above, this is a non-cullin Siah1-based RING E3 ligase that shares SKP1/F-box subunits with SCF complexes but is not itself an SCF complex (no cullin scaffold). The specific GO:0030877 (beta-catenin destruction complex) is the accurate term.
Reason: Same rationale as the IBA SCF annotation - the Siah1 E3 complex is non-cullin and therefore not an SCF complex as defined by GO:0019005.
Supporting Evidence:
PMID:16085652
the adaptor protein Skp1, and the F-box protein Ebi
|
|
GO:0019904
protein domain specific binding
|
IEA
GO_REF:0000107 |
MARK AS OVER ANNOTATED |
Summary: Protein domain specific binding is a broad orthology-transferred molecular function without specific support; more informative terms (Siah1 binding, S100 binding) are captured elsewhere.
Reason: Too general and automatically transferred; superseded by the specific binding terms.
|
|
GO:0044297
cell body
|
IEA
GO_REF:0000107 |
MARK AS OVER ANNOTATED |
Summary: Cell body is an orthology-transferred neuronal localization without direct human support.
Reason: Automated Ensembl Compara transfer not supported by direct evidence for human CACYBP.
|
|
GO:0045740
positive regulation of DNA replication
|
IEA
GO_REF:0000107 |
MARK AS OVER ANNOTATED |
Summary: Positive regulation of DNA replication is a broad orthology-transferred process not supported by direct mechanistic evidence for human CACYBP.
Reason: Automated transfer; not a documented core function.
|
|
GO:0055007
cardiac muscle cell differentiation
|
IEA
GO_REF:0000107 |
MARK AS OVER ANNOTATED |
Summary: Cardiac muscle cell differentiation is an orthology-transferred developmental process without direct support for human CACYBP.
Reason: Automated transfer; not a documented core function.
|
|
GO:0060416
response to growth hormone
|
IEA
GO_REF:0000107 |
MARK AS OVER ANNOTATED |
Summary: Response to growth hormone is an orthology-transferred process without direct mechanistic support for human CACYBP.
Reason: Automated transfer; not a documented core function.
|
|
GO:0071277
cellular response to calcium ion
|
IEA
GO_REF:0000107 |
KEEP AS NON CORE |
Summary: Cellular response to calcium ion is consistent with CACYBP's calcium-dependent S100 binding and calcium-regulated localization, but the term is broad and the annotation is an orthology transfer.
Reason: The calcium-dependence of CACYBP function is real, but this broad process term is best retained as non-core relative to its E3-adaptor molecular role.
Supporting Evidence:
file:human/CACYBP/CACYBP-uniprot.txt
in a calcium-dependent manner
|
|
GO:0005654
nucleoplasm
|
IDA
GO_REF:0000052 |
ACCEPT |
Summary: Nucleoplasmic localization is supported by direct immunofluorescence and the documented nuclear redistribution.
Reason: CACYBP localizes to the nucleus, consistent with nucleoplasmic detection.
Supporting Evidence:
file:human/CACYBP/CACYBP-uniprot.txt
it localizes in both the nucleus and cytoplasm
|
|
GO:0005829
cytosol
|
IDA
GO_REF:0000052 |
ACCEPT |
Summary: Cytosolic localization is well supported; CACYBP is cytoplasmic at low calcium.
Reason: Direct localization data place CACYBP in the cytosol.
Supporting Evidence:
file:human/CACYBP/CACYBP-uniprot.txt
Cytoplasmic at low calcium
|
|
GO:0070062
extracellular exosome
|
HDA
PMID:20458337 MHC class II-associated proteins in B-cell exosomes and pote... |
MARK AS OVER ANNOTATED |
Summary: High-throughput exosome proteomics localization; not a functionally meaningful localization for a nucleocytoplasmic E3-adaptor protein.
Reason: Mass-spectrometry co-purification hit without evidence for a functional extracellular/exosomal role.
|
|
GO:0005515
protein binding
|
IPI
PMID:16085652 Structural analysis of Siah1-Siah-interacting protein intera... |
MARK AS OVER ANNOTATED |
Summary: The underlying evidence is the specific CACYBP/SIP-Siah1 and CACYBP-Skp1 interactions; the generic protein binding term is uninformative relative to those specific terms.
Reason: Bare protein binding is too general; the informative interactions (Siah1/ubiquitin protein ligase binding, adaptor activity) are captured by other terms.
|
|
GO:0030877
beta-catenin destruction complex
|
IDA
PMID:16085652 Structural analysis of Siah1-Siah-interacting protein intera... |
ACCEPT |
Summary: CACYBP/SIP is a component of the Siah1-based complex that targets beta-catenin for degradation; core function.
Reason: CACYBP is directly shown to be part of the multiprotein E3 complex that destroys beta-catenin in response to p53.
Supporting Evidence:
PMID:16085652
a multiprotein E3 ubiquitin ligase complex that targets beta-catenin for destruction in response to p53 activation
|
|
GO:0042803
protein homodimerization activity
|
IPI
PMID:16085652 Structural analysis of Siah1-Siah-interacting protein intera... |
ACCEPT |
Summary: CACYBP/SIP forms a homodimer via its N-terminal dimerization domain, which is required for Siah1 binding and beta-catenin destruction; core molecular property.
Reason: The N-terminal dimerization domain of SIP is structurally characterized and functionally required.
Supporting Evidence:
PMID:16085652
An N-terminal dimerization domain of SIP sits across the saddle-shaped upper surface of Siah1
|
Q: Which substrates beyond beta-catenin are degraded through the Siah1-CACYBP/SIP-SKP1 E3 complex, and how does S100/calcium binding modulate substrate selection or complex assembly?
Q: Are the orthology-transferred developmental annotations (heart development, cardiac muscle cell differentiation) supported by any direct mechanistic role, or are they purely consequences of the E3-adaptor function in particular tissues?
Q: Does CACYBP/SIP have a bona fide protein phosphatase activity toward ERK1/2 (and possibly p38/tau), as suggested by review-level reports, and is this activity regulated by PKC (Ser22/Thr23), CKII (Thr184), and Ca2+/S100A6 binding? This would represent a molecular function distinct from its E3-ligase adaptor role and needs primary biochemical confirmation.
Q: What is the functional consequence of SUMOylation at Lys16 (via Ubc9) for CACYBP/SIP, given the atypical cytoplasmic enrichment of the SUMO-conjugated form, and does it modulate E3-complex assembly, localization, or the proposed phosphatase activity?
Experiment: Reconstitute the Siah1-CACYBP-Skp1-Ebi E3 complex in vitro and test whether calcium-loaded S100A6 binding to CACYBP enhances or inhibits beta-catenin ubiquitination, to define the calcium-to-ubiquitination coupling.
Experiment: Perform quantitative degradomics in CACYBP-knockout vs wild-type cells under calcium stimulation to identify the substrate repertoire dependent on CACYBP.
Experiment: Test for direct, purified-protein phosphatase activity of CACYBP/SIP toward phospho-ERK1/2 in vitro, and determine whether PKC/CKII phosphorylation or Ca2+/S100A6 binding modulate this activity, to confirm or refute the proposed ERK1/2 phosphatase function independent of the E3-adaptor role.
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 requested target is human CACYBP (UniProt Q9HB71), also widely referred to in the literature as CacyBP/SIP (calcyclin-binding protein / Siah-1–interacting protein) and as an S100A6-binding protein. Foundational structural and mechanistic studies define it as a modular, multi-domain adaptor/scaffold protein that binds S100A6 (calcyclin) in a strictly Ca2+-dependent manner and interfaces with Siah-1 and Skp1 in an SCF-like E3 ubiquitin ligase module (lee2008structureofthe pages 1-2, ning2012s100a6proteinnegatively pages 1-2). Because many early studies use mouse/rat tissues or rodent cell lines while using the same name/symbol, careful species/orthology checking is required; nevertheless, the molecular identity (S100A6 ligand; Siah-interacting; modular domains) is consistent across mammalian literature (wasik2013thecacybpsipprotein pages 1-2, filipek2018currentviewon pages 3-4).
CACYBP is best understood as a Ca2+-regulated adaptor/scaffold that integrates:
1) Ca2+/S100 signaling (via Ca2+-dependent binding to S100A6),
2) ubiquitin-mediated proteostasis (via association with Siah-1/Skp1-containing E3 ligase assemblies and modulation of β-catenin stability), and
3) MAPK signaling control (via reported phosphatase activity affecting ERK1/2-dependent transcriptional outputs) (filipek2018currentviewon pages 4-5, lee2008structureofthe pages 1-2, wasik2013thecacybpsipprotein pages 1-2).
Unlike enzymes with a well-defined small-molecule substrate, CACYBP’s “primary function” is protein–protein interaction–driven scaffolding/regulation, influencing substrate selection and signaling state through complex assembly and post-translational modifications (filipek2018currentviewon pages 4-5, lee2008structureofthe pages 1-2).
A key mechanistic advance is the domain-level mapping of CACYBP/SIP:
This architecture is depicted in the original structural paper’s figures (lee2008structureofthe media 3829c55f, lee2008structureofthe media 18fa429a).
CACYBP/SIP was structurally characterized in complex with Ca2+-loaded S100A6, revealing that:
These features support the view that CACYBP can act as a Ca2+-regulated interaction hub whose downstream effects may depend on intracellular Ca2+ and S100A6 activation state (lee2008structureofthe pages 1-2).
Multiple lines of evidence support CACYBP/SIP as a scaffold component in an SCF-like E3 ubiquitin ligase context:
Collectively, current understanding supports CACYBP as a regulator of β-catenin stability via ubiquitin–proteasome complex assembly, with S100A6 binding acting as a negative regulator in some contexts (filipek2018currentviewon pages 4-5, ning2012s100a6proteinnegatively pages 4-6).
CACYBP/SIP is repeatedly described as interacting with ERK1/2 and modulating downstream transcription:
Taken together, CACYBP is positioned as a signaling-state modulator connecting Ca2+/S100 signaling and MAPK pathway output (filipek2018currentviewon pages 4-5, wasik2013thecacybpsipprotein pages 1-2).
CacyBP/SIP is a multi-ligand protein with reported binding partners including tubulin, actin, tropomyosin, and tau (filipek2018currentviewon pages 4-5, wasik2013thecacybpsipprotein pages 1-2). Reviews connect these interactions to neurite outgrowth, differentiation, and cytoskeletal organization (filipek2018currentviewon pages 3-4, filipek2018currentviewon pages 4-5). Although some of the most detailed cytoskeletal mechanistic primary papers were not directly retrievable in this run, the presence of these interactions is consistently cited and integrated into the functional model (ning2012s100a6proteinnegatively pages 8-8, filipek2018currentviewon pages 4-5).
CacyBP/SIP is described as predominantly cytosolic in mammalian cell models, but it can relocalize:
Direct experimental evidence in NB2a cells shows that CacyBP/SIP is SUMOylated:
A review further connects CacyBP/SIP to stress response and nucleolar biology:
A 2024 pan-cancer study (Mo et al., Jan 2024) compiled large TCGA/GTEx-centric analyses:
Interpretation: these data represent real-world translational implementation primarily as a computational biomarker candidate (diagnostic/prognostic/predictive), but causal mechanism remains context-dependent and requires targeted functional validation in each cancer type (mo2024pananalysisrevealscacybp pages 10-13).
Two 2023 reviews (International Journal of Molecular Sciences; Biomarker Research) synthesize S100A6 biology and repeatedly contextualize CacyBP/SIP as a key S100A6 ligand involved in intracellular networks, including competition with ERK1/2 for binding and the β-catenin ubiquitination axis (lesniak2023s100a6protein—expressionand pages 13-15, wang2023s100a6molecularfunction pages 1-2). These reviews function as expert consensus summaries that the S100A6–CACYBP interaction is Ca2+-dependent and mechanistically connected to broader proteostasis and signaling systems (wang2023s100a6molecularfunction pages 1-2, wang2023s100a6molecularfunction pages 11-12).
A 2024 review on Alzheimer’s disease chaperones positions CacyBP/SIP (discussed as an Hsp90 co-chaperone module) among proteins whose dysfunction is implicated in AD pathogenesis, within a broader discussion of proteostasis, Aβ toxicity, and tau aggregation as therapeutic targets (batko2024chaperones—anewclass pages 1-2). This source is authoritative synthesis, but the excerpt available in this run does not provide quantitative CACYBP-specific datasets.
The Mo et al. 2024 study illustrates a typical modern pipeline for candidate biomarkers: combining TCGA/GTEx expression contrasts, survival modeling, ROC/AUC diagnostics, and immune deconvolution (TIMER/ESTIMATE) to nominate genes for follow-up (mo2024pananalysisrevealscacybp pages 1-2, mo2024pananalysisrevealscacybp pages 5-10). In real-world terms, CACYBP is being used as a computationally derived candidate marker and as a target for small-scale protein validation (mo2024pananalysisrevealscacybp pages 1-2).
The gastric cancer study provides a mechanistic application that can inform functional annotation and therapeutic reasoning:
This provides a concrete, mechanistically anchored use case of CACYBP as a regulator of growth phenotypes via β-catenin proteostasis (ning2012s100a6proteinnegatively pages 4-6).
Expert review literature emphasizes that CacyBP/SIP sits at the intersection of Ca2+-dependent S100 signaling, ubiquitin-mediated proteostasis, cytoskeletal remodeling, and stress response. Reviews characterize it as a multi-ligand, multi-domain hub with context-dependent functional outputs, including regulated phosphatase activity and modulated participation in ubiquitin ligase assemblies; S100A6 binding is framed as a key regulatory input (filipek2018currentviewon pages 4-5, filipek2018currentviewon pages 3-4, wang2023s100a6molecularfunction pages 1-2).
The structural paper’s figures provide direct visual support for CACYBP’s modular architecture and S100A6 binding geometry:
CACYBP (Q9HB71) is a cytosolic, Ca2+-responsive scaffold/adaptor that binds S100A6 via its C-terminal SGS region and participates in protein complex assembly affecting β-catenin ubiquitin–proteasome turnover and MAPK (ERK1/2) signaling output, with additional interactions with cytoskeletal proteins and stress/nucleolar pathways. Its regulated localization (cytosol ↔ perinuclear/nucleus) and PTMs (notably SUMOylation at Lys16) support dynamic, condition-dependent functions. Recent 2024 large-scale analyses highlight CACYBP’s potential value as a multi-cancer diagnostic/prognostic marker (lee2008structureofthe pages 1-2, ning2012s100a6proteinnegatively pages 4-6, wasik2013thecacybpsipprotein pages 1-2, filipek2018currentviewon pages 4-5, wasik2013thecacybpsipprotein pages 2-4, mo2024pananalysisrevealscacybp pages 5-10).
| Major functional role | Mechanism / complexes | Key partners | Evidence type | Key citations (with year) |
|---|---|---|---|---|
| S100A6 Ca2+-dependent binding and domain mapping | CACYBP/CacyBP-SIP is a modular adaptor with N-terminal helical hairpin, central CS/p23-like domain, and C-terminal SGS region; S100A6 binds the C-terminal SGS region in a strictly Ca2+-dependent manner. Structural mapping localized a minimal S100A6-binding segment to Ser189-Arg219, with two helices engaging the S100A6 dimer, including a novel interface-spanning mode. | S100A6 (calcyclin); SGS/C-terminal region of CACYBP | Structural (NMR/PDB), biochemical (ITC, mutagenesis), cell-based functional assays | Lee et al., 2008; S100A6/CACYBP reviews 2018, 2023 (lee2008structureofthe pages 1-2, filipek2018currentviewon pages 1-2, wang2023s100a6molecularfunction pages 1-2) |
| SCF-TBL1 / Siah1 / Skp1 involvement and beta-catenin degradation | CACYBP/SIP functions as a scaffold in a putative SCF-like E3 ligase (often termed SCF-TBL1), linking Siah1 and Skp1/TBL1 modules and promoting ubiquitin-proteasome degradation of non-phosphorylated beta-catenin. S100A6 binding can antagonize this anti-beta-catenin function; deletion of the S100-binding region strengthens beta-catenin loss and growth suppression. | Siah1, Skp1, TBL1, beta-catenin, S100A6 | Structural, biochemical (co-IP, proteasome inhibition), cell assays (reporters, proliferation), animal xenograft | Lee et al., 2008; Ning et al., 2012; reviews 2018, 2023 (lee2008structureofthe pages 1-2, ning2012s100a6proteinnegatively pages 1-2, ning2012s100a6proteinnegatively pages 4-6, filipek2018currentviewon pages 4-5, wang2023s100a6molecularfunction pages 11-12) |
| ERK1/2 (and p38/tau) phosphatase activity, regulated by phosphorylation and S100A6 | CACYBP/SIP binds ERK1/2 and lowers downstream Elk-1 phosphorylation; review evidence also supports activity toward p38 and tau. Activity is modulated by PKC phosphorylation at Ser22/Thr23 (enhancing ERK1/2 phosphatase activity), CKII phosphorylation at Thr184, and Ca2+/S100A6 binding, which can inhibit Thr184 phosphorylation and alter phosphatase output. | ERK1/2, Elk-1, p38, tau, PKC, CKII, S100A6 | Biochemical, cell-based signaling assays, review synthesis of mechanistic studies | Wasik & Filipek, 2013; Filipek & Leśniak, 2018; S100A6 reviews 2023 (wasik2013thecacybpsipprotein pages 1-2, filipek2018currentviewon pages 4-5) |
| Cytoskeleton organization and neuronal/cell-shape functions | CACYBP/SIP binds cytoskeletal proteins and is proposed to couple microtubule and actin systems; reported roles include tubulin assembly/transport, actin polymerization, and tau association/co-localization, consistent with functions in neurite outgrowth and differentiation. | Tubulin, actin, tropomyosin, tau | Biochemical binding, cell imaging/localization, functional cell assays, review synthesis | Reviews 2018 and 2012 source synthesis; SUMO paper context 2013 (filipek2018currentviewon pages 3-4, ning2012s100a6proteinnegatively pages 8-8, wasik2013thecacybpsipprotein pages 1-2) |
| Stress, nucleolar roles, localization control, and SUMOylation at K16 | CACYBP/SIP is mainly cytosolic but can relocalize to perinuclear/nuclear compartments after increased intracellular Ca2+, retinoic acid, or oxidative stress. It interacts with nucleolar protein NPM1 and contributes to nucleolar integrity/stress responses. It is SUMOylated by Ubc9 at Lys16; the SUMO-conjugated form is unusually enriched in cytoplasm, and stress can raise CACYBP/SIP levels by ~40-50% in reported systems. | Ubc9, SUMO1, NPM1, S100A6, stress pathways | Biochemical (co-IP, mutagenesis, fractionation), cell localization, stress-response assays | Wasik & Filipek, 2013; Filipek & Leśniak, 2018 (wasik2013thecacybpsipprotein pages 1-2, wasik2013thecacybpsipprotein pages 2-4, wasik2013thecacybpsipprotein pages 4-6, filipek2018currentviewon pages 4-5, filipek2018currentviewon pages 5-6) |
| 2024 pan-cancer biomarker findings | Large integrative pan-cancer analysis found broad CACYBP dysregulation and prognostic/immune associations. Dataset comprised 18,787 samples overall, including 10,080 GTEx/TCGA-profiled samples in one analysis summary; CACYBP was upregulated in 14 cancers, associated with prognosis in 13 cancers, and discriminated 15 cancers with AUC > 0.80; overall AUC was reported as 0.95 (95% CI 0.92-0.96), with some summaries noting 0.97; six paired LUAD samples provided protein-level validation. | Multi-cancer cohorts, immune infiltration metrics, TMB, MSI, LUAD validation samples | Clinical-omics / bioinformatics with limited wet-lab validation | Mo et al., 2024 (mo2024pananalysisrevealscacybp pages 5-10, mo2024pananalysisrevealscacybp pages 1-2, mo2024pananalysisrevealscacybp pages 13-14, mo2024pananalysisrevealscacybp pages 10-13) |
Table: This table summarizes the major experimentally supported and emerging roles of human CACYBP/CacyBP-SIP, organized by mechanism, partners, evidence type, and key citations. It is useful as a compact functional annotation reference spanning core biochemistry through recent 2024 translational findings.
References
(lee2008structureofthe pages 1-2): Young-Tae Lee, Yoana N. Dimitrova, Gabriela Schneider, Whitney B. Ridenour, Shibani Bhattacharya, Sarah E. Soss, Richard M. Caprioli, Anna Filipek, and Walter J. Chazin. Structure of the s100a6 complex with a fragment from the c-terminal domain of siah-1 interacting protein: a novel mode for s100 protein target recognition. Biochemistry, 47 41:10921-32, Oct 2008. URL: https://doi.org/10.1021/bi801233z, doi:10.1021/bi801233z. This article has 80 citations and is from a peer-reviewed journal.
(ning2012s100a6proteinnegatively pages 1-2): Xiaoxuan Ning, Shiren Sun, Kun Zhang, Jie Liang, Yucai Chuai, Yuan Li, and Xiaoming Wang. S100a6 protein negatively regulates cacybp/sip-mediated inhibition of gastric cancer cell proliferation and tumorigenesis. PLoS ONE, 7:e30185, Jan 2012. URL: https://doi.org/10.1371/journal.pone.0030185, doi:10.1371/journal.pone.0030185. This article has 54 citations and is from a peer-reviewed journal.
(wasik2013thecacybpsipprotein pages 1-2): Urszula Wasik and Anna Filipek. The cacybp/sip protein is sumoylated in neuroblastoma nb2a cells. Neurochemical Research, 38:2427-2432, Sep 2013. URL: https://doi.org/10.1007/s11064-013-1155-4, doi:10.1007/s11064-013-1155-4. This article has 11 citations and is from a peer-reviewed journal.
(filipek2018currentviewon pages 3-4): Anna Filipek and Wiesława Leśniak. Current view on cellular function of s100a6 and its ligands, cacybp/sip and sgt1. Postepy biochemii, 64 3:242-252, Dec 2018. URL: https://doi.org/10.18388/pb.2018_136, doi:10.18388/pb.2018_136. This article has 19 citations.
(filipek2018currentviewon pages 4-5): Anna Filipek and Wiesława Leśniak. Current view on cellular function of s100a6 and its ligands, cacybp/sip and sgt1. Postepy biochemii, 64 3:242-252, Dec 2018. URL: https://doi.org/10.18388/pb.2018_136, doi:10.18388/pb.2018_136. This article has 19 citations.
(lee2008structureofthe media 3829c55f): Young-Tae Lee, Yoana N. Dimitrova, Gabriela Schneider, Whitney B. Ridenour, Shibani Bhattacharya, Sarah E. Soss, Richard M. Caprioli, Anna Filipek, and Walter J. Chazin. Structure of the s100a6 complex with a fragment from the c-terminal domain of siah-1 interacting protein: a novel mode for s100 protein target recognition. Biochemistry, 47 41:10921-32, Oct 2008. URL: https://doi.org/10.1021/bi801233z, doi:10.1021/bi801233z. This article has 80 citations and is from a peer-reviewed journal.
(lee2008structureofthe media 18fa429a): Young-Tae Lee, Yoana N. Dimitrova, Gabriela Schneider, Whitney B. Ridenour, Shibani Bhattacharya, Sarah E. Soss, Richard M. Caprioli, Anna Filipek, and Walter J. Chazin. Structure of the s100a6 complex with a fragment from the c-terminal domain of siah-1 interacting protein: a novel mode for s100 protein target recognition. Biochemistry, 47 41:10921-32, Oct 2008. URL: https://doi.org/10.1021/bi801233z, doi:10.1021/bi801233z. This article has 80 citations and is from a peer-reviewed journal.
(ning2012s100a6proteinnegatively pages 4-6): Xiaoxuan Ning, Shiren Sun, Kun Zhang, Jie Liang, Yucai Chuai, Yuan Li, and Xiaoming Wang. S100a6 protein negatively regulates cacybp/sip-mediated inhibition of gastric cancer cell proliferation and tumorigenesis. PLoS ONE, 7:e30185, Jan 2012. URL: https://doi.org/10.1371/journal.pone.0030185, doi:10.1371/journal.pone.0030185. This article has 54 citations and is from a peer-reviewed journal.
(ning2012s100a6proteinnegatively pages 8-8): Xiaoxuan Ning, Shiren Sun, Kun Zhang, Jie Liang, Yucai Chuai, Yuan Li, and Xiaoming Wang. S100a6 protein negatively regulates cacybp/sip-mediated inhibition of gastric cancer cell proliferation and tumorigenesis. PLoS ONE, 7:e30185, Jan 2012. URL: https://doi.org/10.1371/journal.pone.0030185, doi:10.1371/journal.pone.0030185. This article has 54 citations and is from a peer-reviewed journal.
(wasik2013thecacybpsipprotein pages 2-4): Urszula Wasik and Anna Filipek. The cacybp/sip protein is sumoylated in neuroblastoma nb2a cells. Neurochemical Research, 38:2427-2432, Sep 2013. URL: https://doi.org/10.1007/s11064-013-1155-4, doi:10.1007/s11064-013-1155-4. This article has 11 citations and is from a peer-reviewed journal.
(wasik2013thecacybpsipprotein pages 4-6): Urszula Wasik and Anna Filipek. The cacybp/sip protein is sumoylated in neuroblastoma nb2a cells. Neurochemical Research, 38:2427-2432, Sep 2013. URL: https://doi.org/10.1007/s11064-013-1155-4, doi:10.1007/s11064-013-1155-4. This article has 11 citations and is from a peer-reviewed journal.
(filipek2018currentviewon pages 5-6): Anna Filipek and Wiesława Leśniak. Current view on cellular function of s100a6 and its ligands, cacybp/sip and sgt1. Postepy biochemii, 64 3:242-252, Dec 2018. URL: https://doi.org/10.18388/pb.2018_136, doi:10.18388/pb.2018_136. This article has 19 citations.
(mo2024pananalysisrevealscacybp pages 1-2): Baosen Mo, Bijun Luo, and Yuesong Wu. Pan-analysis reveals cacybp to be a novel prognostic and predictive marker for multiple cancers. American journal of translational research, 16 1:12-26, Jan 2024. URL: https://doi.org/10.62347/owvw7440, doi:10.62347/owvw7440. This article has 6 citations and is from a peer-reviewed journal.
(mo2024pananalysisrevealscacybp pages 5-10): Baosen Mo, Bijun Luo, and Yuesong Wu. Pan-analysis reveals cacybp to be a novel prognostic and predictive marker for multiple cancers. American journal of translational research, 16 1:12-26, Jan 2024. URL: https://doi.org/10.62347/owvw7440, doi:10.62347/owvw7440. This article has 6 citations and is from a peer-reviewed journal.
(mo2024pananalysisrevealscacybp pages 10-13): Baosen Mo, Bijun Luo, and Yuesong Wu. Pan-analysis reveals cacybp to be a novel prognostic and predictive marker for multiple cancers. American journal of translational research, 16 1:12-26, Jan 2024. URL: https://doi.org/10.62347/owvw7440, doi:10.62347/owvw7440. This article has 6 citations and is from a peer-reviewed journal.
(lesniak2023s100a6protein—expressionand pages 13-15): Wiesława Leśniak and Anna Filipek. S100a6 protein—expression and function in norm and pathology. International Journal of Molecular Sciences, 24:1341, Jan 2023. URL: https://doi.org/10.3390/ijms24021341, doi:10.3390/ijms24021341. This article has 30 citations.
(wang2023s100a6molecularfunction pages 1-2): Yidian Wang, Xuewen Kang, Xin Kang, and Fengguang Yang. S100a6: molecular function and biomarker role. Biomarker Research, Sep 2023. URL: https://doi.org/10.1186/s40364-023-00515-3, doi:10.1186/s40364-023-00515-3. This article has 54 citations and is from a peer-reviewed journal.
(wang2023s100a6molecularfunction pages 11-12): Yidian Wang, Xuewen Kang, Xin Kang, and Fengguang Yang. S100a6: molecular function and biomarker role. Biomarker Research, Sep 2023. URL: https://doi.org/10.1186/s40364-023-00515-3, doi:10.1186/s40364-023-00515-3. This article has 54 citations and is from a peer-reviewed journal.
(batko2024chaperones—anewclass pages 1-2): Joanna Batko, Katarzyna Antosz, Weronika Miśków, Magdalena Pszczołowska, Kamil Walczak, and Jerzy Leszek. Chaperones—a new class of potential therapeutic targets in alzheimer’s disease. International Journal of Molecular Sciences, 25:3401, Mar 2024. URL: https://doi.org/10.3390/ijms25063401, doi:10.3390/ijms25063401. This article has 41 citations.
(filipek2018currentviewon pages 1-2): Anna Filipek and Wiesława Leśniak. Current view on cellular function of s100a6 and its ligands, cacybp/sip and sgt1. Postepy biochemii, 64 3:242-252, Dec 2018. URL: https://doi.org/10.18388/pb.2018_136, doi:10.18388/pb.2018_136. This article has 19 citations.
(mo2024pananalysisrevealscacybp pages 13-14): Baosen Mo, Bijun Luo, and Yuesong Wu. Pan-analysis reveals cacybp to be a novel prognostic and predictive marker for multiple cancers. American journal of translational research, 16 1:12-26, Jan 2024. URL: https://doi.org/10.62347/owvw7440, doi:10.62347/owvw7440. This article has 6 citations and is from a peer-reviewed journal.
UniProt: Q9HB71 (CYBP_HUMAN). Synonyms: S100A6BP, SIP, S100A6-binding protein, Siah-interacting protein.
HGNC. Aliases SIP = Siah-Interacting Protein.
Synthesis of the Falcon (Edison) report, distinguishing CONFIRMS / NEW / PROVISIONAL relative to the existing review. PMIDs resolved via PubMed.
CONFIRMS (E3 adaptor / S100A6 / beta-catenin axis): Lee et al. 2008 NMR/ITC structure of the S100A6–SIP(189–219) complex confirms strictly Ca2+-dependent S100A6 binding to the C-terminal SGS region and frames SIP as a scaffold in an SCF-like (SCF-TBL1) E3 module linking Siah-1 (E2-recruiting) to Skp1–TBL1 (substrate-recruiting). Domain architecture: N-terminal helical-hairpin (M1–N78), central CS/p23-like (Y79–K177), C-terminal SGS (E178–F229) that folds upon S100A6 binding. [PMID:18803400 "the minimal S100A6 binding region in SIP was mapped to a 31-residue fragment (Ser189-Arg219)"; "a mode of binding to S100A6 that has not previously been observed"]. This complements the existing PMID:16085652 Siah1-assembly structure and our note that the complex is a non-cullin Siah1-based RING E3, not a canonical SCF.
NEW (S100A6 antagonizes the anti-beta-catenin/growth-suppressive function in gastric cancer): Ning et al. 2012 — overexpressed CacyBP/SIP inhibits MKN45 gastric cancer proliferation/tumorigenesis (in vitro + xenograft); a mutant lacking the S100-binding domain (ΔS100) suppresses growth even more strongly, and S100 binding negatively regulates this via beta-catenin protein level and Tcf/LEF transcription; effect is proteasome-dependent (MG132-reversible). PMID:22295074. Adds a regulatory logic (S100A6 = negative regulator) and a domain map consistent with our adaptor model. Does not change existing annotation actions.
NEW (SUMOylation at Lys16; cytoplasmic SUMO-conjugate): Wasik & Filipek 2013 — CacyBP/SIP binds the SUMO E2 Ubc9 and is SUMO1-modified; K16R abolishes modification; atypically, the SUMO-conjugated form is enriched in the cytoplasmic, not nuclear, fraction (in murine NB2a neuroblastoma cells). [PMID:24078263 "lysine 16 is the residue which undergoes sumoylation"; "sumoylated CacyBP/SIP is present in the cytoplasmic and not in the nuclear fraction"]. NEW PTM not previously in review; rodent cell system, so treat as a regulatory-mechanism lead, not a basis for a new human GO annotation.
PROVISIONAL / review-sourced (ERK1/2 phosphatase + PTM regulation): Filipek & Leśniak 2018 review and Wasik & Filipek 2013 report CacyBP/SIP phosphatase activity toward ERK1/2 (lowering Elk-1 phosphorylation), with activity tuned by PKC phosphorylation at Ser22/Thr23 and CKII phosphorylation at Thr184, and Ca2+/S100A6 inhibiting Thr184 phosphorylation. This is a potentially distinct molecular function (protein phosphatase / MAPK phosphatase activity) beyond the E3-adaptor role, but the primary phosphatase papers were NOT retrievable in this run and it is largely review-summarized — flag as PROVISIONAL; do NOT add a phosphatase GO annotation without primary verification. Recorded as a suggested question/experiment.
PROVISIONAL / review-sourced (stress, nucleolar NPM1 role, regulated translocation): Reviews state CacyBP/SIP relocalizes to perinuclear/nuclear compartments on Ca2+ increase, retinoic acid, or oxidative stress; protein levels rise ~40–50% under H2O2/radicicol; required to maintain NPM1 abundance and nucleolar integrity under oxidative stress (NB2a). Consistent with our accepted nuclear/cytoplasmic localization but adds a stress-response/nucleolar angle. PROVISIONAL (review-level, rodent system) — not used to alter annotations.
NEW context, low weight for GO (pan-cancer biomarker): Mo et al. 2024 — integrative TCGA/GTEx analysis (18,787 samples) finds CACYBP dysregulated across cancers (up in 14, down in 6), prognostic in 13, AUC>0.8 in 15/21 (overall AUC 0.95), with TMB/MSI/immune-infiltration associations and Western-blot validation in 6 paired LUAD. PMID:38322570. Bioinformatic/translational biomarker evidence; does not establish a mechanistic GO function and is not used to add annotations.
Attribution: PMIDs for Lee 2008 (PMID:18803400), Ning 2012 (PMID:22295074), Wasik 2013 (PMID:24078263), Mo 2024 (PMID:38322570) verified via PubMed (DOIs 10.1021/bi801233z, 10.1371/journal.pone.0030185, 10.1007/s11064-013-1155-4, 10.62347/OWVW7440).
Cytonuclear proteostasis|Chaperone|HSP90 system|HSP90 cochaperone|CS domain containing ; PN-node mapping: cochaperone type → mapped/ok_for_propagation GO:0051879 Hsp90 protein binding (goa_status=more_specific_than_existing_goa); subtype/group/class/branch → no_mapping.This file is generated from the current PROTEOSTASIS phase-1 dossier and local gene-review artifacts. Edit the source review, PN mapping, or dossier rather than this generated note when correcting the underlying curation.
id: Q9HB71
gene_symbol: CACYBP
product_type: PROTEIN
status: COMPLETE
taxon:
id: NCBITaxon:9606
label: Homo sapiens
description: 'CACYBP (Calcyclin-Binding Protein; also known as SIP, Siah-Interacting
Protein, and S100A6-binding protein) is a small nucleocytoplasmic adaptor protein
that acts as a molecular bridge in a Siah1/Siah2-based, SKP1-containing E3 ubiquitin
ligase complex. Through an N-terminal dimerization domain that binds Siah1 and a
C-terminal domain that binds SKP1, it scaffolds substrate and the E2 enzyme into
apposition, enabling ubiquitination and proteasomal degradation of target proteins,
most notably beta-catenin (CTNNB1) in a p53-responsive pathway. CACYBP binds proteins
of the S100 family (calcyclin/S100A6, S100A1, S100B, S100P, S100A12) in a calcium-dependent
manner, linking calcium signaling to this ubiquitination machinery, and it forms
homodimers. It is found in the cytoplasm at low calcium and redistributes between
cytoplasm and nucleus upon calcium increase and certain stimuli.'
alternative_products:
- name: '1'
id: Q9HB71-1
- name: 2 (SIP-S, S)
id: Q9HB71-2
sequence_note: VSP_010171, VSP_010172
- name: '3'
id: Q9HB71-3
sequence_note: VSP_046862
existing_annotations:
- term:
id: GO:0005634
label: nucleus
evidence_type: IBA
original_reference_id: GO_REF:0000033
qualifier: is_active_in
review:
summary: Nuclear localization is supported; CACYBP redistributes to the nucleus
upon calcium increase and stimulation, consistent with its role in degradation
of nuclear/cytoplasmic substrates.
action: ACCEPT
reason: CACYBP is documented in the nucleus and cytoplasm, with calcium-dependent
nuclear redistribution.
supported_by:
- reference_id: file:human/CACYBP/CACYBP-uniprot.txt
supporting_text: it localizes in both the nucleus and
cytoplasm
reference_section_type: DATABASE_ENTRY
- term:
id: GO:0019005
label: SCF ubiquitin ligase complex
evidence_type: IBA
original_reference_id: GO_REF:0000033
qualifier: part_of
review:
summary: The Siah1-SIP-Skp1-Ebi complex CACYBP participates in is a SIAH1 RING-finger
E3 ligase, not a canonical SCF (SKP1-Cullin1-F-box) complex - it shares SKP1
and an F-box subunit but lacks the defining cullin scaffold. The specific complex
term GO:0030877 (beta-catenin destruction complex) is already accepted for this
gene with IDA evidence, so the SCF complex assignment is a phylogenetic over-transfer
from SKP1/F-box component sharing.
action: MARK_AS_OVER_ANNOTATED
reason: The Siah1-based E3 complex is non-cullin and therefore not an SCF complex
as defined by GO:0019005, even though it shares SKP1 and an F-box subunit. The
more specific GO:0030877 (beta-catenin destruction complex) annotation already
captures the actual complex membership accurately.
supported_by:
- reference_id: PMID:16085652
supporting_text: The E3
complex comprises, in addition to Siah1, Siah-interacting protein (SIP), the
adaptor protein Skp1, and the F-box protein Ebi
reference_section_type: ABSTRACT
- term:
id: GO:0031625
label: ubiquitin protein ligase binding
evidence_type: IBA
original_reference_id: GO_REF:0000033
qualifier: enables
review:
summary: CACYBP binds the RING E3 ligases SIAH1/SIAH2 directly, a core molecular
function underlying its bridging role.
action: ACCEPT
reason: Direct interaction of CACYBP/SIP with Siah1 is structurally characterized
and is central to assembly of the beta-catenin-destruction E3 complex.
supported_by:
- reference_id: PMID:16085652
supporting_text: SIP engages
Siah1 by means of two elements
reference_section_type: ABSTRACT
- term:
id: GO:0060090
label: molecular adaptor activity
evidence_type: IBA
original_reference_id: GO_REF:0000033
qualifier: enables
review:
summary: CACYBP serves as a molecular bridge/adaptor in ubiquitin E3 complexes,
bringing substrate and E2 into apposition; this is its core molecular function.
action: ACCEPT
reason: CACYBP scaffolds Siah1 and Skp1 and provides the surface that brings substrate
and the E2 enzyme together.
supported_by:
- reference_id: PMID:16085652
supporting_text: this
surface provides the scaffold for bringing substrate and the E2 enzyme into
apposition in the functional complex
reference_section_type: ABSTRACT
- term:
id: GO:0007507
label: heart development
evidence_type: IBA
original_reference_id: GO_REF:0000033
qualifier: involved_in
review:
summary: Heart development is a broad developmental process not supported by direct
mechanistic evidence for human CACYBP; the protein's documented role is as an
E3 ligase adaptor.
action: MARK_AS_OVER_ANNOTATED
reason: No direct evidence links CACYBP to heart development as a core function;
this appears to be a phylogenetic/orthology-based broad transfer.
- term:
id: GO:0005634
label: nucleus
evidence_type: IEA
original_reference_id: GO_REF:0000044
qualifier: located_in
review:
summary: Nuclear localization is supported by direct subcellular localization data.
action: ACCEPT
reason: CACYBP localizes to the nucleus, especially after calcium increase.
supported_by:
- reference_id: file:human/CACYBP/CACYBP-uniprot.txt
supporting_text: it localizes in both the nucleus and
cytoplasm
reference_section_type: DATABASE_ENTRY
- term:
id: GO:0005737
label: cytoplasm
evidence_type: IEA
original_reference_id: GO_REF:0000120
qualifier: located_in
review:
summary: Cytoplasmic localization is well supported; CACYBP is cytoplasmic at low
calcium concentrations.
action: ACCEPT
reason: Direct localization data place CACYBP in the cytoplasm.
supported_by:
- reference_id: file:human/CACYBP/CACYBP-uniprot.txt
supporting_text: Cytoplasmic at low calcium
reference_section_type: DATABASE_ENTRY
- term:
id: GO:0015631
label: tubulin binding
evidence_type: IEA
original_reference_id: GO_REF:0000002
qualifier: enables
review:
summary: Tubulin binding is an InterPro-based electronic inference without direct
human experimental support; cytoskeletal roles are reported but not as a clear
core molecular function.
action: MARK_AS_OVER_ANNOTATED
reason: No direct experimental evidence in the cached literature supports tubulin
binding as a core CACYBP function; it is an automated domain-based transfer.
- term:
id: GO:0031625
label: ubiquitin protein ligase binding
evidence_type: IEA
original_reference_id: GO_REF:0000120
qualifier: enables
review:
summary: CACYBP binds the E3 ligase Siah1 directly; core molecular function (consistent
with the IBA annotation).
action: ACCEPT
reason: Direct Siah1 interaction is structurally established.
supported_by:
- reference_id: PMID:16085652
supporting_text: SIP engages
Siah1 by means of two elements
reference_section_type: ABSTRACT
- term:
id: GO:0044548
label: S100 protein binding
evidence_type: IEA
original_reference_id: GO_REF:0000002
qualifier: enables
review:
summary: Calcium-dependent binding to S100 family proteins (calcyclin/S100A6 and
others) is the basis of the protein's name and a core molecular function linking
calcium signaling to its ubiquitination machinery.
action: ACCEPT
reason: CACYBP interacts with multiple S100 proteins in a calcium-dependent manner.
supported_by:
- reference_id: file:human/CACYBP/CACYBP-uniprot.txt
supporting_text: Interacts with proteins of the S100 family S100A1,
S100A6, S100B, S100P and S100A12 in a calcium-dependent manner
reference_section_type: DATABASE_ENTRY
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:25036637
qualifier: enables
review:
summary: Generic protein binding from a high-throughput chaperone interaction (LUMIER)
network; uninformative.
action: MARK_AS_OVER_ANNOTATED
reason: Bare protein binding does not convey a specific CACYBP molecular function.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:31837246
qualifier: enables
review:
summary: The underlying data are S100 family interaction profiling, but the GO
term used is generic protein binding; S100 protein binding is the informative
term.
action: MARK_AS_OVER_ANNOTATED
reason: Bare protein binding is uninformative; the specific S100 binding is captured
by GO:0044548.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:31980649
qualifier: enables
review:
summary: Generic protein binding from an EGFR-network interactome study; uninformative.
action: MARK_AS_OVER_ANNOTATED
reason: Bare protein binding from a high-throughput screen does not identify a
core CACYBP function.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:33961781
qualifier: enables
review:
summary: Generic protein binding from the BioPlex proteome-scale interactome; uninformative.
action: MARK_AS_OVER_ANNOTATED
reason: Bare protein binding is too general to represent CACYBP function.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:36115835
qualifier: enables
review:
summary: Generic protein binding from a PDZ-affinity fragmentomics interactome;
uninformative.
action: MARK_AS_OVER_ANNOTATED
reason: Bare protein binding does not convey a specific CACYBP molecular function.
- term:
id: GO:0005641
label: nuclear envelope lumen
evidence_type: IEA
original_reference_id: GO_REF:0000107
qualifier: located_in
review:
summary: Nuclear envelope lumen is an orthology-transferred localization with no
direct support; inconsistent with the documented nucleoplasmic/cytoplasmic distribution.
action: MARK_AS_OVER_ANNOTATED
reason: An automated Ensembl Compara transfer not supported by direct human localization
evidence.
- term:
id: GO:0007507
label: heart development
evidence_type: IEA
original_reference_id: GO_REF:0000107
qualifier: involved_in
review:
summary: Heart development is a broad orthology-transferred process without direct
mechanistic support for human CACYBP.
action: MARK_AS_OVER_ANNOTATED
reason: Automated transfer; CACYBP's core role is as an E3 ligase adaptor, not
a defined cardiac developmental factor.
- term:
id: GO:0019005
label: SCF ubiquitin ligase complex
evidence_type: IEA
original_reference_id: GO_REF:0000107
qualifier: part_of
review:
summary: As for the IBA SCF complex annotation above, this is a non-cullin
Siah1-based RING E3 ligase that shares SKP1/F-box subunits with SCF complexes
but is not itself an SCF complex (no cullin scaffold). The specific
GO:0030877 (beta-catenin destruction complex) is the accurate term.
action: MARK_AS_OVER_ANNOTATED
reason: Same rationale as the IBA SCF annotation - the Siah1 E3 complex is non-cullin
and therefore not an SCF complex as defined by GO:0019005.
supported_by:
- reference_id: PMID:16085652
supporting_text: the
adaptor protein Skp1, and the F-box protein Ebi
reference_section_type: ABSTRACT
- term:
id: GO:0019904
label: protein domain specific binding
evidence_type: IEA
original_reference_id: GO_REF:0000107
qualifier: enables
review:
summary: Protein domain specific binding is a broad orthology-transferred molecular
function without specific support; more informative terms (Siah1 binding, S100
binding) are captured elsewhere.
action: MARK_AS_OVER_ANNOTATED
reason: Too general and automatically transferred; superseded by the specific binding
terms.
- term:
id: GO:0044297
label: cell body
evidence_type: IEA
original_reference_id: GO_REF:0000107
qualifier: located_in
review:
summary: Cell body is an orthology-transferred neuronal localization without direct
human support.
action: MARK_AS_OVER_ANNOTATED
reason: Automated Ensembl Compara transfer not supported by direct evidence for
human CACYBP.
- term:
id: GO:0045740
label: positive regulation of DNA replication
evidence_type: IEA
original_reference_id: GO_REF:0000107
qualifier: involved_in
review:
summary: Positive regulation of DNA replication is a broad orthology-transferred
process not supported by direct mechanistic evidence for human CACYBP.
action: MARK_AS_OVER_ANNOTATED
reason: Automated transfer; not a documented core function.
- term:
id: GO:0055007
label: cardiac muscle cell differentiation
evidence_type: IEA
original_reference_id: GO_REF:0000107
qualifier: involved_in
review:
summary: Cardiac muscle cell differentiation is an orthology-transferred developmental
process without direct support for human CACYBP.
action: MARK_AS_OVER_ANNOTATED
reason: Automated transfer; not a documented core function.
- term:
id: GO:0060416
label: response to growth hormone
evidence_type: IEA
original_reference_id: GO_REF:0000107
qualifier: involved_in
review:
summary: Response to growth hormone is an orthology-transferred process without
direct mechanistic support for human CACYBP.
action: MARK_AS_OVER_ANNOTATED
reason: Automated transfer; not a documented core function.
- term:
id: GO:0071277
label: cellular response to calcium ion
evidence_type: IEA
original_reference_id: GO_REF:0000107
qualifier: involved_in
review:
summary: Cellular response to calcium ion is consistent with CACYBP's calcium-dependent
S100 binding and calcium-regulated localization, but the term is broad and the
annotation is an orthology transfer.
action: KEEP_AS_NON_CORE
reason: The calcium-dependence of CACYBP function is real, but this broad process
term is best retained as non-core relative to its E3-adaptor molecular role.
supported_by:
- reference_id: file:human/CACYBP/CACYBP-uniprot.txt
supporting_text: in a calcium-dependent manner
reference_section_type: DATABASE_ENTRY
- term:
id: GO:0005654
label: nucleoplasm
evidence_type: IDA
original_reference_id: GO_REF:0000052
qualifier: located_in
review:
summary: Nucleoplasmic localization is supported by direct immunofluorescence and
the documented nuclear redistribution.
action: ACCEPT
reason: CACYBP localizes to the nucleus, consistent with nucleoplasmic detection.
supported_by:
- reference_id: file:human/CACYBP/CACYBP-uniprot.txt
supporting_text: it localizes in both the nucleus and
cytoplasm
reference_section_type: DATABASE_ENTRY
- term:
id: GO:0005829
label: cytosol
evidence_type: IDA
original_reference_id: GO_REF:0000052
qualifier: located_in
review:
summary: Cytosolic localization is well supported; CACYBP is cytoplasmic at low
calcium.
action: ACCEPT
reason: Direct localization data place CACYBP in the cytosol.
supported_by:
- reference_id: file:human/CACYBP/CACYBP-uniprot.txt
supporting_text: Cytoplasmic at low calcium
reference_section_type: DATABASE_ENTRY
- term:
id: GO:0070062
label: extracellular exosome
evidence_type: HDA
original_reference_id: PMID:20458337
qualifier: located_in
review:
summary: High-throughput exosome proteomics localization; not a functionally meaningful
localization for a nucleocytoplasmic E3-adaptor protein.
action: MARK_AS_OVER_ANNOTATED
reason: Mass-spectrometry co-purification hit without evidence for a functional
extracellular/exosomal role.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:16085652
qualifier: enables
review:
summary: The underlying evidence is the specific CACYBP/SIP-Siah1 and CACYBP-Skp1
interactions; the generic protein binding term is uninformative relative to those
specific terms.
action: MARK_AS_OVER_ANNOTATED
reason: Bare protein binding is too general; the informative interactions (Siah1/ubiquitin
protein ligase binding, adaptor activity) are captured by other terms.
- term:
id: GO:0030877
label: beta-catenin destruction complex
evidence_type: IDA
original_reference_id: PMID:16085652
qualifier: part_of
review:
summary: CACYBP/SIP is a component of the Siah1-based complex that targets beta-catenin
for degradation; core function.
action: ACCEPT
reason: CACYBP is directly shown to be part of the multiprotein E3 complex that
destroys beta-catenin in response to p53.
supported_by:
- reference_id: PMID:16085652
supporting_text: a multiprotein E3 ubiquitin
ligase complex that targets beta-catenin for destruction in response to p53
activation
reference_section_type: ABSTRACT
- term:
id: GO:0042803
label: protein homodimerization activity
evidence_type: IPI
original_reference_id: PMID:16085652
qualifier: enables
review:
summary: CACYBP/SIP forms a homodimer via its N-terminal dimerization domain, which
is required for Siah1 binding and beta-catenin destruction; core molecular property.
action: ACCEPT
reason: The N-terminal dimerization domain of SIP is structurally characterized
and functionally required.
supported_by:
- reference_id: PMID:16085652
supporting_text: An N-terminal dimerization domain of SIP sits
across the saddle-shaped upper surface of Siah1
reference_section_type: ABSTRACT
core_functions:
- description: Acts as a molecular adaptor/bridge that assembles a Siah1/Siah2-based,
SKP1-containing E3 ubiquitin ligase complex, bringing substrate and the E2 enzyme
into apposition to enable ubiquitination and proteasomal degradation of targets.
supported_by:
- reference_id: PMID:16085652
supporting_text: this
surface provides the scaffold for bringing substrate and the E2 enzyme into
apposition in the functional complex
reference_section_type: ABSTRACT
molecular_function:
id: GO:0060090
label: molecular adaptor activity
in_complex:
id: GO:0030877
label: beta-catenin destruction complex
- description: Binds the RING E3 ligase Siah1 (and Siah2) directly via an N-terminal
dimerization domain and a Siah-binding motif, a core interaction for E3 complex
assembly and beta-catenin degradation.
supported_by:
- reference_id: PMID:16085652
supporting_text: SIP engages
Siah1 by means of two elements
reference_section_type: ABSTRACT
molecular_function:
id: GO:0031625
label: ubiquitin protein ligase binding
- description: Binds S100 family proteins (calcyclin/S100A6 and others) in a calcium-dependent
manner, linking calcium signaling to the ubiquitination machinery.
supported_by:
- reference_id: file:human/CACYBP/CACYBP-uniprot.txt
supporting_text: Interacts with proteins of the S100 family S100A1,
S100A6, S100B, S100P and S100A12 in a calcium-dependent manner
reference_section_type: DATABASE_ENTRY
molecular_function:
id: GO:0044548
label: S100 protein binding
proposed_new_terms: []
suggested_questions:
- question: Which substrates beyond beta-catenin are degraded through the Siah1-CACYBP/SIP-SKP1
E3 complex, and how does S100/calcium binding modulate substrate selection or
complex assembly?
- question: Are the orthology-transferred developmental annotations (heart development,
cardiac muscle cell differentiation) supported by any direct mechanistic role,
or are they purely consequences of the E3-adaptor function in particular tissues?
- question: Does CACYBP/SIP have a bona fide protein phosphatase activity toward ERK1/2
(and possibly p38/tau), as suggested by review-level reports, and is this activity
regulated by PKC (Ser22/Thr23), CKII (Thr184), and Ca2+/S100A6 binding? This would
represent a molecular function distinct from its E3-ligase adaptor role and needs
primary biochemical confirmation.
- question: What is the functional consequence of SUMOylation at Lys16 (via Ubc9)
for CACYBP/SIP, given the atypical cytoplasmic enrichment of the SUMO-conjugated
form, and does it modulate E3-complex assembly, localization, or the proposed
phosphatase activity?
suggested_experiments:
- description: Reconstitute the Siah1-CACYBP-Skp1-Ebi E3 complex in vitro and test
whether calcium-loaded S100A6 binding to CACYBP enhances or inhibits beta-catenin
ubiquitination, to define the calcium-to-ubiquitination coupling.
- description: Perform quantitative degradomics in CACYBP-knockout vs wild-type cells
under calcium stimulation to identify the substrate repertoire dependent on CACYBP.
- description: Test for direct, purified-protein phosphatase activity of CACYBP/SIP
toward phospho-ERK1/2 in vitro, and determine whether PKC/CKII phosphorylation
or Ca2+/S100A6 binding modulate this activity, to confirm or refute the proposed
ERK1/2 phosphatase function independent of the E3-adaptor role.
references:
- id: GO_REF:0000002
title: Gene Ontology annotation through association of InterPro records with GO
terms
findings: []
- id: GO_REF:0000033
title: Annotation inferences using phylogenetic trees
findings: []
- id: GO_REF:0000044
title: Gene Ontology annotation based on UniProtKB/Swiss-Prot Subcellular Location
vocabulary mapping, accompanied by conservative changes to GO terms applied by
UniProt
findings: []
- id: GO_REF:0000052
title: Gene Ontology annotation based on curation of immunofluorescence data
findings: []
- id: GO_REF:0000107
title: Automatic transfer of experimentally verified manual GO annotation data to
orthologs using Ensembl Compara
findings: []
- id: GO_REF:0000120
title: Combined Automated Annotation using Multiple IEA Methods
findings: []
- id: PMID:16085652
title: Structural analysis of Siah1-Siah-interacting protein interactions and insights
into the assembly of an E3 ligase multiprotein complex.
findings: []
- id: PMID:20458337
title: MHC class II-associated proteins in B-cell exosomes and potential functional
implications for exosome biogenesis.
findings: []
- id: PMID:25036637
title: A quantitative chaperone interaction network reveals the architecture of
cellular protein homeostasis pathways.
findings: []
- id: PMID:31837246
title: High-throughput competitive fluorescence polarization assay reveals functional
redundancy in the S100 protein family.
findings: []
- id: PMID:31980649
title: Extensive rewiring of the EGFR network in colorectal cancer cells expressing
transforming levels of KRAS(G13D).
findings: []
- id: PMID:33961781
title: Dual proteome-scale networks reveal cell-specific remodeling of the human
interactome.
findings: []
- id: PMID:36115835
title: Quantitative fragmentomics allow affinity mapping of interactomes.
findings: []
- id: PMID:18803400
title: 'Structure of the S100A6 complex with a fragment from the C-terminal domain
of Siah-1 interacting protein: a novel mode for S100 protein target recognition.'
full_text_unavailable: true
findings:
- statement: NMR/ITC structure of the Ca2+-loaded S100A6 complex with CACYBP/SIP(189-219)
shows S100A6 binds the C-terminal SGS region of SIP in a strictly calcium-dependent
manner, with a minimal binding fragment Ser189-Arg219; SIP is described as a
scaffold in an SCF-like (SCF-TBL1) E3 ligase that links the Siah-1 module to
the Skp1-TBL1 substrate-recruiting module.
- id: PMID:22295074
title: S100A6 protein negatively regulates CacyBP/SIP-mediated inhibition of gastric
cancer cell proliferation and tumorigenesis.
full_text_unavailable: true
findings:
- statement: Overexpression of CacyBP/SIP inhibits gastric cancer cell proliferation
and tumorigenesis, an effect strengthened by deleting the S100-binding domain;
S100 binding negatively regulates this anti-proliferative activity through reduction
of beta-catenin protein and Tcf/LEF transcriptional activity, and the beta-catenin
reduction is proteasome-dependent (reversed by MG132).
- id: PMID:24078263
title: The CacyBP/SIP protein is sumoylated in neuroblastoma NB2a cells.
full_text_unavailable: true
findings:
- statement: CacyBP/SIP binds the SUMO E2 enzyme Ubc9 and is SUMO1-modified at Lysine
16 (abolished by the K16R mutation); atypically, the SUMO-conjugated form is
enriched in the cytoplasmic rather than the nuclear fraction.
- id: PMID:38322570
title: Pan-analysis reveals CACYBP to be a novel prognostic and predictive marker
for multiple cancers.
full_text_unavailable: true
findings:
- statement: Integrative pan-cancer analysis reports CACYBP is differentially expressed
across many cancer types (upregulated in 14, downregulated in 6), associated
with prognosis in 13 cancers and with tumor mutational burden, microsatellite
instability, and immune infiltration, with protein-level upregulation validated
in paired lung adenocarcinoma specimens.