CBLIF (gastric intrinsic factor, GIF; also called intrinsic factor, IF) is a secreted cobalamin (vitamin B12)-binding glycoprotein produced by gastric parietal cells (and, at the margins of gastric anatomical regions, by some chief and enteroendocrine cells). Its principal role is the intestinal absorption of dietary cobalamin: after cobalamin is released from salivary/gastric haptocorrin in the proximal small intestine, CBLIF binds it tightly, and the resulting CBLIF-cobalamin complex is recognized in the distal ileum by the cubam receptor formed by cubilin (CUBN) and amnionless (AMN). Cubam mediates receptor-dependent endocytosis of the complex, which is then delivered to lysosomes where cobalamin is released for cellular use. Structurally CBLIF is a two-domain alpha6/alpha6 barrel protein that binds one cobalamin at the domain interface in a base-on conformation. It is not an enzyme; it functions as a cobalamin-binding carrier and as the ligand recognized by the cubam cargo receptor. Loss-of-function mutations cause hereditary intrinsic factor deficiency (congenital/juvenile pernicious anemia; MIM:261000), a form of megaloblastic anemia resulting from vitamin B12 malabsorption.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
|
GO:0005576
extracellular region
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: Phylogenetic (IBA) annotation placing CBLIF in the extracellular region. CBLIF is a secreted protein that acts extracellularly (in the gut lumen / on the intestinal apical surface) to bind and deliver cobalamin, so this is correct and part of the core biology.
Reason: UniProt records the protein as secreted, and it functions extracellularly as a cobalamin carrier. The IBA call is consistent with experimental localization and the known biology.
Supporting Evidence:
file:human/CBLIF/CBLIF-uniprot.txt
SUBCELLULAR LOCATION: Secreted.
|
|
GO:0015889
cobalamin transport
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: Phylogenetic (IBA) annotation to cobalamin transport. CBLIF is required for intestinal absorption of dietary cobalamin, binding it and mediating cubam(CUBN/AMN)-dependent uptake in the ileum. This is a core biological process for the gene.
Reason: Supported experimentally by human loss-of-function disease (hereditary IF deficiency) and by the well-established IF-cobalamin/cubam absorption pathway. Correct and core.
Supporting Evidence:
PMID:20237569
This occurs by the combined action of the gastric intrinsic factor (IF) and the ileal endocytic cubam receptor formed by the 460-kilodalton (kDa) protein cubilin and the 45-kDa transmembrane protein amnionless.
file:human/CBLIF/CBLIF-uniprot.txt
Promotes absorption of the essential vitamin cobalamin (Cbl) in the ileum. After interaction with CUBN, the CBLIF-cobalamin complex is internalized via receptor-mediated endocytosis.
|
|
GO:0031419
cobalamin binding
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: Phylogenetic (IBA) annotation to cobalamin binding, the defining molecular function of CBLIF. This is directly supported by the crystal structure of the human IF-cobalamin complex and by defined cobalamin-contacting residues in UniProt.
Reason: Cobalamin binding is the core molecular function of intrinsic factor, confirmed by structural and biochemical evidence. The IBA call is at the correct level of specificity.
Supporting Evidence:
PMID:17954916
the Cbl is bound at the interface of the domains in a base-on conformation
|
|
GO:0005576
extracellular region
|
IEA
GO_REF:0000044 |
ACCEPT |
Summary: Electronic annotation to extracellular region derived from the UniProt "Secreted" subcellular location keyword mapping. Consistent with the experimental and phylogenetic evidence for a secreted protein.
Reason: Redundant with the IBA/IDA extracellular-region calls but correct; the SubCell mapping accurately reflects the secreted nature of the protein.
Supporting Evidence:
file:human/CBLIF/CBLIF-uniprot.txt
SUBCELLULAR LOCATION: Secreted.
|
|
GO:0015889
cobalamin transport
|
IEA
GO_REF:0000002 |
ACCEPT |
Summary: InterPro2GO electronic annotation (IPR002157, cobalamin-binding protein) to cobalamin transport. Consistent with the experimentally supported transport role.
Reason: The InterPro family mapping is biologically appropriate for CBLIF and matches the experimental IMP/IBA/TAS annotations to the same process.
Supporting Evidence:
file:human/CBLIF/CBLIF-uniprot.txt
Promotes absorption of the essential vitamin cobalamin (Cbl) in the ileum.
|
|
GO:0031419
cobalamin binding
|
IEA
GO_REF:0000002 |
ACCEPT |
Summary: InterPro2GO electronic annotation (IPR002157) to cobalamin binding. Matches the structurally validated core molecular function.
Reason: The cobalamin-binding domain assignment is correct for CBLIF and the mapped MF term is the defining function, corroborated by crystallography (PMID:17954916).
Supporting Evidence:
PMID:17954916
The structure of intrinsic factor (IF) in complex with cobalamin (Cbl) was determined at 2.6-A resolution.
|
|
GO:0005515
protein binding
|
IPI
PMID:20237569 Structural basis for receptor recognition of vitamin-B(12)-i... |
MARK AS OVER ANNOTATED |
Summary: IPI annotation to the generic term protein binding, capturing the interaction with cubilin (CUBN, IntAct O60494). This interaction is real and functionally central (the IF-Cbl complex is recognized by the CUBN/AMN cubam receptor for ileal uptake), and is structurally defined. However, the bare "protein binding" term is uninformative about the actual function.
Reason: Per curation guidance, the uninformative "protein binding" term should not be treated as a core function even though the underlying CUBN interaction is genuine. The functional content of this interaction is better represented by the cobalamin-transport process and the cargo receptor ligand activity annotations, and by the specific CUBN partner recorded in UniProt SUBUNIT.
Supporting Evidence:
PMID:20237569
how two distant CUB domains embrace the Cbl molecule by binding the two IF domains in a Ca(2+)-dependent manner
file:human/CBLIF/CBLIF-uniprot.txt
Interacts with CUBN (via CUB domains).
|
|
GO:0005515
protein binding
|
IPI
PMID:32296183 A reference map of the human binary protein interactome. |
MARK AS OVER ANNOTATED |
Summary: IPI annotation to protein binding from the HuRI high-throughput binary (yeast two-hybrid) interactome screen. The recorded partners (FFAR2, SLC13A4, SLC22A23, SLC7A1, SLC7A14, TMEM237) are membrane transporters/GPCRs with no established biological relationship to a secreted cobalamin-binding protein.
Reason: These are uninformative large-scale screen hits and the bare "protein binding" term conveys no functional information; they are very unlikely to reflect physiological partners of a secreted extracellular Cbl carrier. Marked as over-annotated rather than removed, per policy for IPI protein-binding annotations.
Supporting Evidence:
PMID:32296183
reference interactome map of human binary protein interactions
|
|
GO:0015889
cobalamin transport
|
TAS
Reactome:R-HSA-9758881 |
ACCEPT |
Summary: Reactome TAS annotation to cobalamin transport, from the "Uptake of dietary cobalamins into enterocytes" pathway. CBLIF binds dietary cobalamin and delivers it to the ileal cubam receptor for absorption; this is the core process.
Reason: Reactome's pathway representation accurately captures CBLIF's role in the intestinal cobalamin absorption pathway, consistent with experimental (IMP) and phylogenetic (IBA) annotations.
Supporting Evidence:
file:human/CBLIF/CBLIF-uniprot.txt
Promotes absorption of the essential vitamin cobalamin (Cbl) in the ileum.
|
|
GO:0140355
cargo receptor ligand activity
|
EXP
PMID:17954916 Crystal structure of human intrinsic factor: cobalamin compl... |
ACCEPT |
Summary: Experimental annotation to cargo receptor ligand activity. The cobalamin-loaded CBLIF complex is the ligand recognized by the cubam (CUBN/AMN) cargo receptor, which then internalizes it by endocytosis in the ileum. This captures the receptor-recognition facet of CBLIF's transport function.
Reason: Structural work shows CUBN recognizes the Cbl-saturated IF complex, and the complex is taken up by receptor-mediated endocytosis; "cargo receptor ligand activity" is the appropriate MF for a secreted carrier ligand that engages an endocytic receptor. This is an informative, core molecular function.
Supporting Evidence:
PMID:17954916
CUB recognizes both the full-length Cbl-saturated IF complex and the Cbl-saturated cleaved IF complex but not the isolated
file:human/CBLIF/CBLIF-uniprot.txt
After interaction with CUBN, the CBLIF-cobalamin complex is internalized via receptor-mediated endocytosis.
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-3000103 |
ACCEPT |
Summary: Reactome TAS localization to extracellular region for the reaction in which the cubam (CUBN:AMN) receptor binds the secreted CBLIF:RCbl complex. Correct for a secreted protein acting on the intestinal luminal/apical surface.
Reason: Consistent with the secreted subcellular location and with the other extracellular annotations.
Supporting Evidence:
file:human/CBLIF/CBLIF-uniprot.txt
SUBCELLULAR LOCATION: Secreted.
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-3000120 |
ACCEPT |
Summary: Reactome TAS localization to extracellular region for the reaction "CBLIF binds RCbl" (binding of free cobalamin by secreted intrinsic factor in the intestinal lumen). Correct for the secreted protein.
Reason: Redundant with other extracellular-region calls but accurate; the binding of cobalamin by CBLIF occurs extracellularly in the gut lumen.
Supporting Evidence:
file:human/CBLIF/CBLIF-uniprot.txt
SUBCELLULAR LOCATION: Secreted.
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-3000137 |
ACCEPT |
Summary: Reactome TAS localization to extracellular region for the cubam-mediated uptake reaction. Correct for the secreted CBLIF:RCbl complex engaging the cell-surface receptor prior to internalization.
Reason: Consistent with the secreted nature of the protein and its extracellular site of action.
Supporting Evidence:
file:human/CBLIF/CBLIF-uniprot.txt
SUBCELLULAR LOCATION: Secreted.
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-3296462 |
ACCEPT |
Summary: Reactome TAS localization to extracellular region for the disease reaction "Defective CUBN does not transport GIF:Cbl". The extracellular localization of CBLIF is correct regardless of the disease context.
Reason: Accurate secreted localization; redundant with the other extracellular annotations.
Supporting Evidence:
file:human/CBLIF/CBLIF-uniprot.txt
SUBCELLULAR LOCATION: Secreted.
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-3296477 |
ACCEPT |
Summary: Reactome TAS localization to extracellular region for the disease reaction "Defective AMN does not transport GIF:Cbl". The secreted CBLIF localization is correct.
Reason: Accurate secreted localization; redundant with the other extracellular annotations.
Supporting Evidence:
file:human/CBLIF/CBLIF-uniprot.txt
SUBCELLULAR LOCATION: Secreted.
|
|
GO:0005576
extracellular region
|
TAS
Reactome:R-HSA-3315455 |
ACCEPT |
Summary: Reactome TAS localization to extracellular region for the disease reaction "Defective CBLIF does not bind Cbl". The secreted CBLIF localization is correct.
Reason: Accurate secreted localization; redundant with the other extracellular annotations.
Supporting Evidence:
file:human/CBLIF/CBLIF-uniprot.txt
SUBCELLULAR LOCATION: Secreted.
|
|
GO:0043202
lysosomal lumen
|
TAS
Reactome:R-HSA-3000137 |
KEEP AS NON CORE |
Summary: Reactome TAS localization to lysosomal lumen. After cubam-mediated endocytosis in the ileal enterocyte, the CBLIF:RCbl complex is delivered to lysosomes, where cobalamin is released and CBLIF is degraded. This is a genuine trafficking endpoint but not the protein's core (secreted, cobalamin-binding) function.
Reason: The lysosomal-lumen localization reflects the fate of the internalized complex in the target enterocyte rather than where CBLIF performs its defining function; retain as a correct but non-core localization.
Supporting Evidence:
file:human/CBLIF/CBLIF-uniprot.txt
After interaction with CUBN, the CBLIF-cobalamin complex is internalized via receptor-mediated endocytosis.
|
|
GO:0043202
lysosomal lumen
|
TAS
Reactome:R-HSA-3000243 |
KEEP AS NON CORE |
Summary: Reactome TAS localization to lysosomal lumen for the reaction in which a lysosomal protease degrades CBLIF:RCbl to release cobalamin. Same non-core trafficking endpoint as R-HSA-3000137.
Reason: Correct localization of the internalized complex within the enterocyte lysosome, but peripheral to CBLIF's defining secreted cobalamin-binding function.
Supporting Evidence:
file:human/CBLIF/CBLIF-uniprot.txt
After interaction with CUBN, the CBLIF-cobalamin complex is internalized via receptor-mediated endocytosis.
|
|
GO:0005576
extracellular region
|
IDA
PMID:14695536 A genetic polymorphism in the coding region of the gastric i... |
ACCEPT |
Summary: IDA localization to extracellular region. Recombinant CBLIF expressed in COS-7 cells was secreted with size, secretion rate, and pepsin sensitivity similar to native IF, supporting the secreted/extracellular localization.
Reason: Direct experimental support for secretion of the protein; core extracellular localization.
Supporting Evidence:
PMID:14695536
The apparent size, secretion rate, and sensitivity to pepsin hydrolysis of the expressed IF were similar to native IF.
|
|
GO:0005768
endosome
|
IDA
PMID:8886952 Human gastric intrinsic factor expression is not restricted ... |
KEEP AS NON CORE |
Summary: IDA localization to endosome, from immunoelectron microscopy of human gastric mucosa showing highest intrinsic factor antigen density on endocytic (and apical) membranes of parietal cells. Reflects the intracellular biosynthetic/secretory and endocytic compartments in the producing cell rather than the core secreted function.
Reason: A real, experimentally observed localization within intrinsic-factor-producing cells, but peripheral to the protein's defining extracellular cobalamin-binding/transport role.
Supporting Evidence:
PMID:8886952
Immunoelectron microscopy demonstrated the highest antigen density on endocytic and apical membranes of parietal cells.
|
|
GO:0005902
microvillus
|
IDA
PMID:8886952 Human gastric intrinsic factor expression is not restricted ... |
KEEP AS NON CORE |
Summary: IDA localization to microvillus, from the same immuno-localization study of intrinsic factor in gastric mucosa. Represents cell-surface/apical membrane localization in the producing parietal cell; non-core relative to the secreted function.
Reason: Experimentally observed apical/microvillar membrane association in parietal cells; correct but peripheral to CBLIF's core secreted cobalamin-binding/transport function.
Supporting Evidence:
PMID:8886952
Immunoelectron microscopy demonstrated the highest antigen density on endocytic and apical membranes of parietal cells.
|
|
GO:0015889
cobalamin transport
|
IMP
PMID:15738392 Hereditary juvenile cobalamin deficiency caused by mutations... |
ACCEPT |
Summary: IMP annotation to cobalamin transport based on human genetics: biallelic nonsense and missense GIF (CBLIF) mutations cause hereditary intrinsic factor deficiency with juvenile megaloblastic anemia due to intestinal cobalamin malabsorption. This is the strongest experimental support for CBLIF's role in cobalamin transport/absorption.
Reason: Loss-of-function mutations abolishing intestinal cobalamin absorption directly demonstrate CBLIF's requirement for cobalamin transport; core process.
Supporting Evidence:
PMID:15738392
harbored homozygous nonsense and missense mutations in these four families and in three additional families. The disease in these cases therefore should be classified as hereditary IF deficiency.
|
|
GO:0016324
apical plasma membrane
|
IDA
PMID:8886952 Human gastric intrinsic factor expression is not restricted ... |
KEEP AS NON CORE |
Summary: IDA localization to apical plasma membrane, from immunoelectron microscopy showing highest intrinsic factor antigen density on apical (and endocytic) membranes of gastric parietal cells. Reflects the apical secretory surface of the producing cell.
Reason: Experimentally supported apical membrane association in parietal cells; a correct but non-core localization relative to the secreted extracellular function.
Supporting Evidence:
PMID:8886952
Immunoelectron microscopy demonstrated the highest antigen density on endocytic and apical membranes of parietal cells.
|
|
GO:0031419
cobalamin binding
|
IDA
PMID:14695536 A genetic polymorphism in the coding region of the gastric i... |
ACCEPT |
Summary: IDA annotation to cobalamin binding, the defining molecular function of CBLIF, assessed for recombinant IF (studied in the context of the congenital IF deficiency-associated Q23R variant). Directly corroborated by the crystal structure of the IF-cobalamin complex.
Reason: Cobalamin binding is CBLIF's core molecular function, supported here by direct assay of the recombinant protein and by structural evidence (PMID:17954916).
Supporting Evidence:
PMID:14695536
The apparent size, secretion rate, and sensitivity to pepsin hydrolysis of the expressed IF were similar to native IF.
PMID:17954916
the Cbl is bound at the interface of the domains in a base-on conformation
|
UniProtKB:P27352 (IF_HUMAN). HGNC:4268. Synonyms: GIF, IFMH. NCBITaxon:9606.
CBLIF is the secreted cobalamin (vitamin B12)-binding glycoprotein produced by
gastric parietal cells (and, at anatomical margins, some chief/enteroendocrine cells).
Its core function is to bind dietary cobalamin in the small intestine and to mediate
its receptor-dependent absorption in the distal ileum. The IFβcobalamin complex is taken
up by the ileal cubam receptor (cubilin/CUBN + amnionless/AMN) via receptor-mediated
endocytosis; the complex is delivered to lysosomes where Cbl is released. CBLIF is NOT an
enzyme. Loss of function causes hereditary intrinsic factor deficiency (IFD, MIM:261000),
a form of juvenile/congenital pernicious anemia presenting as megaloblastic anemia from B12
malabsorption.
PMID:17954916 (Mathews et al. 2007, PNAS) β crystal structure of human IF:Cbl at 2.6 Γ
; alpha6/alpha6 barrel two-domain protein; Cbl bound base-on at domain interface. Basis of Reactome's EXP cargo receptor ligand activity and cobalamin binding calls. PMID:17954916 and PMID:17954916. Also describes the CUB(N) receptor recognition: PMID:17954916.
PMID:20237569 (Andersen et al. 2010, Nature) β crystal structure of IF:Cbl bound to cubilin CUB(5-8); defines how the cubam receptor recognizes the IF-Cbl complex. Source of the CUBN IPI (IntAct O60494). Abstract-only in cache. Abstract: PMID:20237569 and PMID:20237569.
PMID:15738392 (Tanner et al. 2005, PNAS) β biallelic GIF mutations (nonsense/missense) cause hereditary IF deficiency; distinct from Imerslund-Grasbeck (CUBN/AMN). IMP evidence for role in cobalamin transport/absorption. PMID:15738392
PMID:14695536 (Gordon et al. 2004, Hum Mutat) β Gln5βArg (mature Q23R) coding polymorphism associated with congenital IF deficiency; recombinant IF expressed/secreted from COS-7 with native size, secretion rate, pepsin sensitivity. Supports secreted localization and Cbl binding of the expressed protein. PMID:14695536
PMID:8886952 (Howard et al. 1996, J Anat) β immuno-localization of human IF; parietal cells are the main source but expression is not restricted to them. Immunoelectron microscopy: highest antigen density on endocytic and apical membranes of parietal cells; also secretory granules. IDA support for endosome / microvillus / apical plasma membrane localization in the producing cell. PMID:8886952
PMID:32296183 (Luck et al. 2020, Nature) β HuRI high-throughput binary (Y2H) interactome. Source of several IPI protein binding calls (FFAR2, SLC13A4, SLC22A23, SLC7A1, SLC7A14, TMEM237). These are large-scale screen hits with no established biological role for a secreted Cbl-binding protein; treat as uninformative protein binding over-annotations, not true partners.
protein binding term is uninformative β MARK_AS_OVER_ANNOTATED (per policy, not REMOVE). HuRI hits (PMID:32296183) β MARK_AS_OVER_ANNOTATED (uninformative screen hits).id: P27352
gene_symbol: CBLIF
product_type: PROTEIN
status: INITIALIZED
taxon:
id: NCBITaxon:9606
label: Homo sapiens
description: >-
CBLIF (gastric intrinsic factor, GIF; also called intrinsic factor, IF) is a secreted
cobalamin (vitamin B12)-binding glycoprotein produced by gastric parietal cells (and,
at the margins of gastric anatomical regions, by some chief and enteroendocrine cells).
Its principal role is the intestinal absorption of dietary cobalamin: after cobalamin is
released from salivary/gastric haptocorrin in the proximal small intestine, CBLIF binds
it tightly, and the resulting CBLIF-cobalamin complex is recognized in the distal ileum
by the cubam receptor formed by cubilin (CUBN) and amnionless (AMN). Cubam mediates
receptor-dependent endocytosis of the complex, which is then delivered to lysosomes where
cobalamin is released for cellular use. Structurally CBLIF is a two-domain alpha6/alpha6
barrel protein that binds one cobalamin at the domain interface in a base-on conformation.
It is not an enzyme; it functions as a cobalamin-binding carrier and as the ligand
recognized by the cubam cargo receptor. Loss-of-function mutations cause hereditary
intrinsic factor deficiency (congenital/juvenile pernicious anemia; MIM:261000), a form of
megaloblastic anemia resulting from vitamin B12 malabsorption.
alternative_products:
- name: '1'
id: P27352-1
- name: '2'
id: P27352-2
sequence_note: VSP_041585
existing_annotations:
- term:
id: GO:0005576
label: extracellular region
evidence_type: IBA
original_reference_id: GO_REF:0000033
qualifier: is_active_in
review:
summary: >-
Phylogenetic (IBA) annotation placing CBLIF in the extracellular region. CBLIF is a
secreted protein that acts extracellularly (in the gut lumen / on the intestinal
apical surface) to bind and deliver cobalamin, so this is correct and part of the
core biology.
action: ACCEPT
reason: >-
UniProt records the protein as secreted, and it functions extracellularly as a
cobalamin carrier. The IBA call is consistent with experimental localization and the
known biology.
supported_by:
- reference_id: file:human/CBLIF/CBLIF-uniprot.txt
supporting_text: "SUBCELLULAR LOCATION: Secreted."
- term:
id: GO:0015889
label: cobalamin transport
evidence_type: IBA
original_reference_id: GO_REF:0000033
qualifier: involved_in
review:
summary: >-
Phylogenetic (IBA) annotation to cobalamin transport. CBLIF is required for intestinal
absorption of dietary cobalamin, binding it and mediating cubam(CUBN/AMN)-dependent
uptake in the ileum. This is a core biological process for the gene.
action: ACCEPT
reason: >-
Supported experimentally by human loss-of-function disease (hereditary IF deficiency)
and by the well-established IF-cobalamin/cubam absorption pathway. Correct and core.
supported_by:
- reference_id: PMID:20237569
supporting_text: >-
This occurs by the combined action of the gastric intrinsic factor (IF) and the
ileal endocytic cubam receptor formed by the 460-kilodalton (kDa) protein cubilin
and the 45-kDa transmembrane protein amnionless.
- reference_id: file:human/CBLIF/CBLIF-uniprot.txt
supporting_text: >-
Promotes absorption of the essential vitamin cobalamin (Cbl) in the ileum. After
interaction with CUBN, the CBLIF-cobalamin complex is internalized via
receptor-mediated endocytosis.
- term:
id: GO:0031419
label: cobalamin binding
evidence_type: IBA
original_reference_id: GO_REF:0000033
qualifier: enables
review:
summary: >-
Phylogenetic (IBA) annotation to cobalamin binding, the defining molecular function of
CBLIF. This is directly supported by the crystal structure of the human IF-cobalamin
complex and by defined cobalamin-contacting residues in UniProt.
action: ACCEPT
reason: >-
Cobalamin binding is the core molecular function of intrinsic factor, confirmed by
structural and biochemical evidence. The IBA call is at the correct level of
specificity.
supported_by:
- reference_id: PMID:17954916
supporting_text: >-
the Cbl is bound at the interface of the domains in a base-on conformation
- term:
id: GO:0005576
label: extracellular region
evidence_type: IEA
original_reference_id: GO_REF:0000044
qualifier: located_in
review:
summary: >-
Electronic annotation to extracellular region derived from the UniProt "Secreted"
subcellular location keyword mapping. Consistent with the experimental and
phylogenetic evidence for a secreted protein.
action: ACCEPT
reason: >-
Redundant with the IBA/IDA extracellular-region calls but correct; the SubCell mapping
accurately reflects the secreted nature of the protein.
supported_by:
- reference_id: file:human/CBLIF/CBLIF-uniprot.txt
supporting_text: "SUBCELLULAR LOCATION: Secreted."
- term:
id: GO:0015889
label: cobalamin transport
evidence_type: IEA
original_reference_id: GO_REF:0000002
qualifier: involved_in
review:
summary: >-
InterPro2GO electronic annotation (IPR002157, cobalamin-binding protein) to cobalamin
transport. Consistent with the experimentally supported transport role.
action: ACCEPT
reason: >-
The InterPro family mapping is biologically appropriate for CBLIF and matches the
experimental IMP/IBA/TAS annotations to the same process.
supported_by:
- reference_id: file:human/CBLIF/CBLIF-uniprot.txt
supporting_text: >-
Promotes absorption of the essential vitamin cobalamin (Cbl) in the ileum.
- term:
id: GO:0031419
label: cobalamin binding
evidence_type: IEA
original_reference_id: GO_REF:0000002
qualifier: enables
review:
summary: >-
InterPro2GO electronic annotation (IPR002157) to cobalamin binding. Matches the
structurally validated core molecular function.
action: ACCEPT
reason: >-
The cobalamin-binding domain assignment is correct for CBLIF and the mapped MF term is
the defining function, corroborated by crystallography (PMID:17954916).
supported_by:
- reference_id: PMID:17954916
supporting_text: >-
The structure of intrinsic factor (IF) in complex with cobalamin (Cbl) was
determined at 2.6-A resolution.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:20237569
qualifier: enables
review:
summary: >-
IPI annotation to the generic term protein binding, capturing the interaction with
cubilin (CUBN, IntAct O60494). This interaction is real and functionally central (the
IF-Cbl complex is recognized by the CUBN/AMN cubam receptor for ileal uptake), and is
structurally defined. However, the bare "protein binding" term is uninformative about
the actual function.
action: MARK_AS_OVER_ANNOTATED
reason: >-
Per curation guidance, the uninformative "protein binding" term should not be treated
as a core function even though the underlying CUBN interaction is genuine. The
functional content of this interaction is better represented by the
cobalamin-transport process and the cargo receptor ligand activity annotations, and by
the specific CUBN partner recorded in UniProt SUBUNIT.
supported_by:
- reference_id: PMID:20237569
supporting_text: >-
how two distant CUB domains embrace the Cbl molecule by binding the two IF domains
in a Ca(2+)-dependent manner
- reference_id: file:human/CBLIF/CBLIF-uniprot.txt
supporting_text: "Interacts with CUBN (via CUB domains)."
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:32296183
qualifier: enables
review:
summary: >-
IPI annotation to protein binding from the HuRI high-throughput binary (yeast
two-hybrid) interactome screen. The recorded partners (FFAR2, SLC13A4, SLC22A23,
SLC7A1, SLC7A14, TMEM237) are membrane transporters/GPCRs with no established
biological relationship to a secreted cobalamin-binding protein.
action: MARK_AS_OVER_ANNOTATED
reason: >-
These are uninformative large-scale screen hits and the bare "protein binding" term
conveys no functional information; they are very unlikely to reflect physiological
partners of a secreted extracellular Cbl carrier. Marked as over-annotated rather than
removed, per policy for IPI protein-binding annotations.
supported_by:
- reference_id: PMID:32296183
supporting_text: >-
reference interactome map of human binary protein interactions
- term:
id: GO:0015889
label: cobalamin transport
evidence_type: TAS
original_reference_id: Reactome:R-HSA-9758881
qualifier: involved_in
review:
summary: >-
Reactome TAS annotation to cobalamin transport, from the "Uptake of dietary cobalamins
into enterocytes" pathway. CBLIF binds dietary cobalamin and delivers it to the ileal
cubam receptor for absorption; this is the core process.
action: ACCEPT
reason: >-
Reactome's pathway representation accurately captures CBLIF's role in the intestinal
cobalamin absorption pathway, consistent with experimental (IMP) and phylogenetic
(IBA) annotations.
supported_by:
- reference_id: file:human/CBLIF/CBLIF-uniprot.txt
supporting_text: >-
Promotes absorption of the essential vitamin cobalamin (Cbl) in the ileum.
- term:
id: GO:0140355
label: cargo receptor ligand activity
evidence_type: EXP
original_reference_id: PMID:17954916
qualifier: enables
review:
summary: >-
Experimental annotation to cargo receptor ligand activity. The cobalamin-loaded CBLIF
complex is the ligand recognized by the cubam (CUBN/AMN) cargo receptor, which then
internalizes it by endocytosis in the ileum. This captures the receptor-recognition
facet of CBLIF's transport function.
action: ACCEPT
reason: >-
Structural work shows CUBN recognizes the Cbl-saturated IF complex, and the complex is
taken up by receptor-mediated endocytosis; "cargo receptor ligand activity" is the
appropriate MF for a secreted carrier ligand that engages an endocytic receptor. This
is an informative, core molecular function.
supported_by:
- reference_id: PMID:17954916
supporting_text: >-
CUB recognizes both the full-length Cbl-saturated IF complex and the Cbl-saturated
cleaved IF complex but not the isolated
- reference_id: file:human/CBLIF/CBLIF-uniprot.txt
supporting_text: >-
After interaction with CUBN, the CBLIF-cobalamin complex is internalized via
receptor-mediated endocytosis.
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-3000103
qualifier: located_in
review:
summary: >-
Reactome TAS localization to extracellular region for the reaction in which the cubam
(CUBN:AMN) receptor binds the secreted CBLIF:RCbl complex. Correct for a secreted
protein acting on the intestinal luminal/apical surface.
action: ACCEPT
reason: >-
Consistent with the secreted subcellular location and with the other extracellular
annotations.
supported_by:
- reference_id: file:human/CBLIF/CBLIF-uniprot.txt
supporting_text: "SUBCELLULAR LOCATION: Secreted."
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-3000120
qualifier: located_in
review:
summary: >-
Reactome TAS localization to extracellular region for the reaction "CBLIF binds RCbl"
(binding of free cobalamin by secreted intrinsic factor in the intestinal lumen).
Correct for the secreted protein.
action: ACCEPT
reason: >-
Redundant with other extracellular-region calls but accurate; the binding of cobalamin
by CBLIF occurs extracellularly in the gut lumen.
supported_by:
- reference_id: file:human/CBLIF/CBLIF-uniprot.txt
supporting_text: "SUBCELLULAR LOCATION: Secreted."
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-3000137
qualifier: located_in
review:
summary: >-
Reactome TAS localization to extracellular region for the cubam-mediated uptake
reaction. Correct for the secreted CBLIF:RCbl complex engaging the cell-surface
receptor prior to internalization.
action: ACCEPT
reason: >-
Consistent with the secreted nature of the protein and its extracellular site of
action.
supported_by:
- reference_id: file:human/CBLIF/CBLIF-uniprot.txt
supporting_text: "SUBCELLULAR LOCATION: Secreted."
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-3296462
qualifier: located_in
review:
summary: >-
Reactome TAS localization to extracellular region for the disease reaction "Defective
CUBN does not transport GIF:Cbl". The extracellular localization of CBLIF is correct
regardless of the disease context.
action: ACCEPT
reason: >-
Accurate secreted localization; redundant with the other extracellular annotations.
supported_by:
- reference_id: file:human/CBLIF/CBLIF-uniprot.txt
supporting_text: "SUBCELLULAR LOCATION: Secreted."
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-3296477
qualifier: located_in
review:
summary: >-
Reactome TAS localization to extracellular region for the disease reaction "Defective
AMN does not transport GIF:Cbl". The secreted CBLIF localization is correct.
action: ACCEPT
reason: >-
Accurate secreted localization; redundant with the other extracellular annotations.
supported_by:
- reference_id: file:human/CBLIF/CBLIF-uniprot.txt
supporting_text: "SUBCELLULAR LOCATION: Secreted."
- term:
id: GO:0005576
label: extracellular region
evidence_type: TAS
original_reference_id: Reactome:R-HSA-3315455
qualifier: located_in
review:
summary: >-
Reactome TAS localization to extracellular region for the disease reaction "Defective
CBLIF does not bind Cbl". The secreted CBLIF localization is correct.
action: ACCEPT
reason: >-
Accurate secreted localization; redundant with the other extracellular annotations.
supported_by:
- reference_id: file:human/CBLIF/CBLIF-uniprot.txt
supporting_text: "SUBCELLULAR LOCATION: Secreted."
- term:
id: GO:0043202
label: lysosomal lumen
evidence_type: TAS
original_reference_id: Reactome:R-HSA-3000137
qualifier: located_in
review:
summary: >-
Reactome TAS localization to lysosomal lumen. After cubam-mediated endocytosis in the
ileal enterocyte, the CBLIF:RCbl complex is delivered to lysosomes, where cobalamin is
released and CBLIF is degraded. This is a genuine trafficking endpoint but not the
protein's core (secreted, cobalamin-binding) function.
action: KEEP_AS_NON_CORE
reason: >-
The lysosomal-lumen localization reflects the fate of the internalized complex in the
target enterocyte rather than where CBLIF performs its defining function; retain as a
correct but non-core localization.
supported_by:
- reference_id: file:human/CBLIF/CBLIF-uniprot.txt
supporting_text: >-
After interaction with CUBN, the CBLIF-cobalamin complex is internalized via
receptor-mediated endocytosis.
- term:
id: GO:0043202
label: lysosomal lumen
evidence_type: TAS
original_reference_id: Reactome:R-HSA-3000243
qualifier: located_in
review:
summary: >-
Reactome TAS localization to lysosomal lumen for the reaction in which a lysosomal
protease degrades CBLIF:RCbl to release cobalamin. Same non-core trafficking endpoint
as R-HSA-3000137.
action: KEEP_AS_NON_CORE
reason: >-
Correct localization of the internalized complex within the enterocyte lysosome, but
peripheral to CBLIF's defining secreted cobalamin-binding function.
supported_by:
- reference_id: file:human/CBLIF/CBLIF-uniprot.txt
supporting_text: >-
After interaction with CUBN, the CBLIF-cobalamin complex is internalized via
receptor-mediated endocytosis.
- term:
id: GO:0005576
label: extracellular region
evidence_type: IDA
original_reference_id: PMID:14695536
qualifier: located_in
review:
summary: >-
IDA localization to extracellular region. Recombinant CBLIF expressed in COS-7 cells
was secreted with size, secretion rate, and pepsin sensitivity similar to native IF,
supporting the secreted/extracellular localization.
action: ACCEPT
reason: >-
Direct experimental support for secretion of the protein; core extracellular
localization.
supported_by:
- reference_id: PMID:14695536
supporting_text: >-
The apparent size, secretion rate, and sensitivity to pepsin hydrolysis of the
expressed IF were similar to native IF.
- term:
id: GO:0005768
label: endosome
evidence_type: IDA
original_reference_id: PMID:8886952
qualifier: located_in
review:
summary: >-
IDA localization to endosome, from immunoelectron microscopy of human gastric mucosa
showing highest intrinsic factor antigen density on endocytic (and apical) membranes
of parietal cells. Reflects the intracellular biosynthetic/secretory and endocytic
compartments in the producing cell rather than the core secreted function.
action: KEEP_AS_NON_CORE
reason: >-
A real, experimentally observed localization within intrinsic-factor-producing cells,
but peripheral to the protein's defining extracellular cobalamin-binding/transport
role.
supported_by:
- reference_id: PMID:8886952
supporting_text: >-
Immunoelectron microscopy demonstrated the highest antigen density on endocytic and
apical membranes of parietal cells.
- term:
id: GO:0005902
label: microvillus
evidence_type: IDA
original_reference_id: PMID:8886952
qualifier: located_in
review:
summary: >-
IDA localization to microvillus, from the same immuno-localization study of intrinsic
factor in gastric mucosa. Represents cell-surface/apical membrane localization in the
producing parietal cell; non-core relative to the secreted function.
action: KEEP_AS_NON_CORE
reason: >-
Experimentally observed apical/microvillar membrane association in parietal cells;
correct but peripheral to CBLIF's core secreted cobalamin-binding/transport function.
supported_by:
- reference_id: PMID:8886952
supporting_text: >-
Immunoelectron microscopy demonstrated the highest antigen density on endocytic and
apical membranes of parietal cells.
- term:
id: GO:0015889
label: cobalamin transport
evidence_type: IMP
original_reference_id: PMID:15738392
qualifier: involved_in
review:
summary: >-
IMP annotation to cobalamin transport based on human genetics: biallelic nonsense and
missense GIF (CBLIF) mutations cause hereditary intrinsic factor deficiency with
juvenile megaloblastic anemia due to intestinal cobalamin malabsorption. This is the
strongest experimental support for CBLIF's role in cobalamin transport/absorption.
action: ACCEPT
reason: >-
Loss-of-function mutations abolishing intestinal cobalamin absorption directly
demonstrate CBLIF's requirement for cobalamin transport; core process.
supported_by:
- reference_id: PMID:15738392
supporting_text: >-
harbored homozygous nonsense and missense mutations in these four families and in
three additional families. The disease in these cases therefore should be classified
as hereditary IF deficiency.
- term:
id: GO:0016324
label: apical plasma membrane
evidence_type: IDA
original_reference_id: PMID:8886952
qualifier: located_in
review:
summary: >-
IDA localization to apical plasma membrane, from immunoelectron microscopy showing
highest intrinsic factor antigen density on apical (and endocytic) membranes of gastric
parietal cells. Reflects the apical secretory surface of the producing cell.
action: KEEP_AS_NON_CORE
reason: >-
Experimentally supported apical membrane association in parietal cells; a correct but
non-core localization relative to the secreted extracellular function.
supported_by:
- reference_id: PMID:8886952
supporting_text: >-
Immunoelectron microscopy demonstrated the highest antigen density on endocytic and
apical membranes of parietal cells.
- term:
id: GO:0031419
label: cobalamin binding
evidence_type: IDA
original_reference_id: PMID:14695536
qualifier: enables
review:
summary: >-
IDA annotation to cobalamin binding, the defining molecular function of CBLIF, assessed
for recombinant IF (studied in the context of the congenital IF deficiency-associated
Q23R variant). Directly corroborated by the crystal structure of the IF-cobalamin
complex.
action: ACCEPT
reason: >-
Cobalamin binding is CBLIF's core molecular function, supported here by direct assay of
the recombinant protein and by structural evidence (PMID:17954916).
supported_by:
- reference_id: PMID:14695536
supporting_text: >-
The apparent size, secretion rate, and sensitivity to pepsin hydrolysis of the
expressed IF were similar to native IF.
- reference_id: PMID:17954916
supporting_text: >-
the Cbl is bound at the interface of the domains in a base-on conformation
core_functions:
- description: >-
Binds dietary cobalamin (vitamin B12) as a secreted carrier and functions as the ligand
recognized by the ileal cubam (CUBN/AMN) cargo receptor, thereby mediating
receptor-dependent intestinal absorption of cobalamin.
molecular_function:
id: GO:0031419
label: cobalamin binding
directly_involved_in:
- id: GO:0015889
label: cobalamin transport
locations:
- id: GO:0005576
label: extracellular region
supported_by:
- reference_id: PMID:17954916
supporting_text: >-
the Cbl is bound at the interface of the domains in a base-on conformation
- reference_id: PMID:15738392
supporting_text: >-
harbored homozygous nonsense and missense mutations in these four families and in
three additional families. The disease in these cases therefore should be classified
as hereditary IF deficiency.
- reference_id: file:human/CBLIF/CBLIF-uniprot.txt
supporting_text: >-
Promotes absorption of the essential vitamin cobalamin (Cbl) in the ileum. After
interaction with CUBN, the CBLIF-cobalamin complex is internalized via
receptor-mediated endocytosis.
- description: >-
Acts as the cargo ligand for the ileal endocytic cubam receptor: the cobalamin-loaded
CBLIF complex is recognized by CUBN/AMN and internalized by receptor-mediated
endocytosis, coupling cobalamin binding to its cellular uptake.
molecular_function:
id: GO:0140355
label: cargo receptor ligand activity
directly_involved_in:
- id: GO:0015889
label: cobalamin transport
locations:
- id: GO:0005576
label: extracellular region
supported_by:
- reference_id: PMID:20237569
supporting_text: >-
This occurs by the combined action of the gastric intrinsic factor (IF) and the ileal
endocytic cubam receptor formed by the 460-kilodalton (kDa) protein cubilin and the
45-kDa transmembrane protein amnionless.
- reference_id: PMID:17954916
supporting_text: >-
CUB recognizes both the full-length Cbl-saturated IF complex and the Cbl-saturated
cleaved IF complex but not the isolated
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: PMID:14695536
title: A genetic polymorphism in the coding region of the gastric intrinsic factor
gene (GIF) is associated with congenital intrinsic factor deficiency.
findings: []
reference_review:
relevance: MEDIUM
correctness: VERIFIED
review_notes: >-
PubMed-verified. Reports the GIF Q5R (mature Q23R) coding polymorphism associated with
congenital IF deficiency and shows recombinant IF is secreted with native-like
properties; supports secreted localization and cobalamin binding of the protein.
- id: PMID:15738392
title: Hereditary juvenile cobalamin deficiency caused by mutations in the intrinsic
factor gene.
findings: []
reference_review:
relevance: HIGH
correctness: VERIFIED
review_notes: >-
PubMed-verified. Establishes that biallelic GIF (CBLIF) mutations cause hereditary
intrinsic factor deficiency (juvenile megaloblastic anemia from B12 malabsorption);
strong genetic support for CBLIF's role in intestinal cobalamin transport.
- id: PMID:17954916
title: 'Crystal structure of human intrinsic factor: cobalamin complex at 2.6-A
resolution.'
findings: []
reference_review:
relevance: HIGH
correctness: VERIFIED
review_notes: >-
PubMed-verified. Crystal structure of human IF-cobalamin; establishes cobalamin
binding at the two-domain interface and discusses CUBN receptor recognition of the
Cbl-saturated complex.
- id: PMID:20237569
title: Structural basis for receptor recognition of vitamin-B(12)-intrinsic factor
complexes.
findings: []
reference_review:
relevance: HIGH
correctness: VERIFIED
review_notes: >-
PubMed-verified (abstract-only in cache). Crystal structure of the IF-Cbl complex bound
to cubilin CUB(5-8); source of the CUBN IPI and defines cubam receptor recognition.
- id: PMID:32296183
title: A reference map of the human binary protein interactome.
findings: []
reference_review:
relevance: LOW
correctness: LOW_QUALITY
review_notes: >-
PubMed-verified. HuRI high-throughput binary (Y2H) interactome; the CBLIF hits
(FFAR2, SLC13A4, SLC22A23, SLC7A1, SLC7A14, TMEM237) are unvalidated screen
interactions with no established biological role for a secreted Cbl-binding protein.
- id: PMID:8886952
title: Human gastric intrinsic factor expression is not restricted to parietal cells.
findings: []
reference_review:
relevance: MEDIUM
correctness: VERIFIED
review_notes: >-
PubMed-verified. Immuno-localization of intrinsic factor in human gastric mucosa;
supports parietal-cell production and apical/endocytic membrane localization; source
of the endosome/microvillus/apical plasma membrane IDA localizations.
- id: file:human/CBLIF/CBLIF-uniprot.txt
title: UniProtKB entry P27352 (IF_HUMAN), Cobalamin binding intrinsic factor
findings: []
reference_review:
relevance: HIGH
correctness: VERIFIED
review_notes: >-
UniProt curated record; source of the FUNCTION (secreted cobalamin absorption via
CUBN), SUBUNIT (interacts with CUBN via CUB domains), secreted subcellular location,
gastric-mucosa tissue specificity, and IFD disease association.
- id: Reactome:R-HSA-3000103
title: CUBN:AMN binds CBLIF:RCbl
findings: []
- id: Reactome:R-HSA-3000120
title: CBLIF binds RCbl
findings: []
- id: Reactome:R-HSA-3000137
title: CUBN:AMN-mediated CBLIF:RCbl uptake and delivery to lysosome
findings: []
- id: Reactome:R-HSA-3000243
title: Unknown lysosomal protease degrades CBLIF:RCbl to release Cbl
findings: []
- id: Reactome:R-HSA-3296462
title: Defective CUBN does not transport GIF:Cbl
findings: []
- id: Reactome:R-HSA-3296477
title: Defective AMN does not transport GIF:Cbl
findings: []
- id: Reactome:R-HSA-3315455
title: Defective CBLIF does not bind Cbl
findings: []
- id: Reactome:R-HSA-9758881
title: Uptake of dietary cobalamins into enterocytes
findings: []