WDPCP

These computational predictions are reviewed separately from the GOA annotation set used for this review. The assessments below are from this project and do not constitute official GO annotations or endorsement by GO/UniProt. They are not included in the existing annotation review above.

GO Term	Evidence	Action	Reason
GO:0005886 plasma membrane	IEA GO_REF:0000044	MODIFY	Summary: The membrane-associated pool of fritz/WDPCP is cortical rather than a plasma membrane protein per se; the experimental observations are cortical concentration of Fritz-GFP in Xenopus and actin-cytoskeleton/focal-adhesion localization in mouse cells. Reason: This row maps the UniProt "Cell membrane" subcellular location, which for this unreviewed entry rests only on an ARBA rule; for the reviewed Xenopus ortholog (same PANTHER subfamily SF5) it traces to Kim et al. 2010, whose text actually reports Fritz-GFP "concentrated at the cell cortex". WDPCP has no transmembrane segment, and its lipid-binding tail prefers PI(3)P, an endosomal rather than plasma-membrane phosphoinositide (PMID:35427153). Mouse Wdpcp is cytoplasmic on actin filaments and focal adhesions (PMID:24302887). The PAINT curators did not propagate plasma membrane from the PTHR13667 node PTN001007408, which carries only ciliary terms. The claim is better expressed as cell cortex (GO:0005938); this is a lateral correction, not a refinement. Proposed replacements: cell cortex Supporting Evidence: PMID:20671153 both sept2 fused to green fluorescent protein (sept2-GFP) and Fritz-GFP were concentrated at the cell cortex during CE PMID:24302887 We show Wdpcp is localized in the ciliary transition zone, and also in the actin cytoskeleton and focal adhesions. file:HORSE/WDPCP/WDPCP-bioinformatics/rereview/RESULTS-rereview.md The node does not carry plasma membrane, axoneme, phosphatidylinositol binding or septin cytoskeleton terms.
GO:0005930 axoneme	IEA GO_REF:0000044	ACCEPT	Summary: Axonemal localization is observed directly for two subfamily SF5 orthologs: endogenous mouse Wdpcp in IMCD3 cells and Xenopus Fritz in multiciliated cells, in addition to the ciliary-base pool. Reason: The previous UNDECIDED was too cautious: the cached full texts state that Wdpcp/Fritz is found along the axoneme as well as in a ring at the ciliary base, in mouse (antibody) and Xenopus. The PAINT node PTN001007408 places the more specific axonemal basal plate (part of axoneme) at the eumetazoan ancestor of the family, and horse WDPCP sits in the same subfamily (SF5) as both experimental orthologs. The horse isoform retains the whole propeller and solenoid that form the CPLANE interfaces. Axoneme is kept as stated rather than refined, because the shaft pool is reported separately from the basal pool. The basal plate localization is not added as a row here because GOA already carries it on the canonical horse WDPCP product (A0A9L0T876); it is recorded in core_functions. Supporting Evidence: PMID:24302887 Using an antibody raised to Wdpcp, we showed Wdpcp is localized to the ciliary axoneme and in a ring-like structure at the base of the cilia in IMCD3 cells PMID:20671153 sept7 and Fritz were localized along ciliary axonemes and in distinct foci near basal bodies file:HORSE/WDPCP/WDPCP-bioinformatics/rereview/RESULTS-rereview.md UniProt places A0A3Q2KRK8 in PTHR13667:SF5, the same subfamily as human O95876, mouse Q8C456 and Xenopus Q32NR9

ProtNLM2 External predictions

View prediction review YAML · WDPCP-protnlm-predictions-review.yaml · Review status: COMPLETE

ProtNLM2 (UniProt API snapshot 2026-09-08) emitted four GO terms for horse WDPCP isoform A0A3Q2KRK8: cell projection organization, cytoplasm, cilium and cytoskeleton. All four are biologically correct for this CPLANE scaffold, which sits in PANTHER subfamily PTHR13667:SF5 with the experimentally characterized mouse, human and Xenopus orthologs and retains the full WD40 propeller and alpha-solenoid. All four are, however, ancestors of more specific annotations the horse gene already carries and that the gene reviews accept: axoneme (on this product) and axonemal basal plate and cilium organization (IBA, on the canonical horse product A0A9L0T876). Each prediction is therefore less precise (LSP).

Source documents: projects/PROTNLM_EVALUATION/mammal-benchmark/horse40-predictions.csv · projects/PROTNLM_EVALUATION/mammal-benchmark/predictions.jsonl.gz · projects/PROTNLM_EVALUATION/mammal-benchmark/paired-sequences/WDPCP.json · genes/HORSE/WDPCP/WDPCP-hypotheses/horse40-cell-projection-organization/openscientist.md · genes/HORSE/WDPCP/WDPCP-ai-review.yaml · genes/HORSE/WDPCP__A0A9L0T876/WDPCP__A0A9L0T876-ai-review.yaml

Review score: 2 = concordant with evidence; 1 = uncertain; 0 = discordant with evidence. This is an assessment score, not a model probability.

GO:0030030 cell projection organization GO_BP

LSP — Less precise than existing annotation Review score: 2/2

Prediction method: ProtNLM2 · Version: UniProt API snapshot 2026-09-08

Review rationale: WDPCP is a CPLANE subunit required for cilium formation: mouse CPLANE recruits peripheral IFT-A to the basal body, and a mouse Wdpcp in-frame deletion abolishes ciliogenesis. Horse A0A3Q2KRK8 is in the same PANTHER subfamily (SF5) as these orthologs and descends from PAINT node PTN001007408, which carries cilium organization; the canonical horse WDPCP product A0A9L0T876 carries GO:0044782 cilium organization by IBA, accepted in its gene review. GO:0044782 is_a GO:0120036 is_a GO:0030030 (OLS4), so the prediction is correct but less specific than an annotation the gene already has. The OpenScientist synthesis reaches the same conclusion on term breadth. The actin protrusion and migration phenotypes are real but do not by themselves warrant a more specific process term here.

Supporting Evidence:

PMID:27158779: "These data suggest that CPLANE acts by recruiting peripheral IFT-A proteins to the basal body"
PMID:41268724: "Cilia formation and Hh signaling were severely impaired."
file:HORSE/WDPCP/WDPCP-bioinformatics/rereview/RESULTS-rereview.md: "UniProt places A0A3Q2KRK8 in PTHR13667:SF5, the same subfamily as human O95876, mouse Q8C456 and Xenopus Q32NR9"
file:HORSE/WDPCP/WDPCP-hypotheses/horse40-cell-projection-organization/openscientist.md: "GO:0030030 is therefore biologically justified for the horse protein. The two curation caveats are that the term is generic (specific children such as cilium assembly and establishment of planar polarity are better supported) and that all functional evidence is transferred by orthology to an unreviewed TrEMBL record, so an **ISS/ISO** evidence code is appropriate rather than an experimental one."

GO:0005737 cytoplasm GO_CC

LSP — Less precise than existing annotation Review score: 2/2

Prediction method: ProtNLM2 · Version: UniProt API snapshot 2026-09-08

Review rationale: Mouse Wdpcp has a cytoplasmic pool on actin filaments and focal adhesions, and Xenopus Fritz concentrates at the cell cortex; both orthologs share PANTHER subfamily SF5 with horse A0A3Q2KRK8, which retains the full propeller and solenoid. The prediction is therefore correct. This product already carries GO:0005930 axoneme (IEA, accepted in the gene review on direct mouse and Xenopus axonemal localization), and axoneme is a descendant of cytoplasm via ciliary plasm (OLS4); the cortical pool is likewise better captured by cell cortex, the replacement the gene review proposes for plasma membrane. Cytoplasm is thus a less precise restatement of supported locations.

Supporting Evidence:

PMID:24302887: "Wdpcp is also found in the cytoplasm, where it is localized in the actin cytoskeleton and in focal adhesions."
PMID:20671153: "both sept2 fused to green fluorescent protein (sept2-GFP) and Fritz-GFP were concentrated at the cell cortex during CE"
PMID:24302887: "Using an antibody raised to Wdpcp, we showed Wdpcp is localized to the ciliary axoneme and in a ring-like structure at the base of the cilia in IMCD3 cells"
file:HORSE/WDPCP/WDPCP-bioinformatics/rereview/RESULTS-rereview.md: "UniProt places A0A3Q2KRK8 in PTHR13667:SF5, the same subfamily as human O95876, mouse Q8C456 and Xenopus Q32NR9"

GO:0005929 cilium GO_CC

LSP — Less precise than existing annotation Review score: 2/2

Prediction method: ProtNLM2 · Version: UniProt API snapshot 2026-09-08

Review rationale: Endogenous mouse Wdpcp is detected along the ciliary axoneme and in a ring at the ciliary base, and Xenopus Fritz localizes along axonemes and near basal bodies; horse A0A3Q2KRK8 is in the same PANTHER subfamily. Cilium is therefore correct. The gene already carries axoneme on this product and axonemal basal plate (IBA) on the canonical product A0A9L0T876, both accepted in the gene reviews, and both are descendants of GO:0005929 cilium (OLS4). The prediction is correct but less specific than existing supported annotations.

Supporting Evidence:

PMID:24302887: "Using an antibody raised to Wdpcp, we showed Wdpcp is localized to the ciliary axoneme and in a ring-like structure at the base of the cilia in IMCD3 cells"
PMID:20671153: "sept7 and Fritz were localized along ciliary axonemes and in distinct foci near basal bodies"
PMID:24302887: "Wdpcp is localized to the transition zone"
file:HORSE/WDPCP/WDPCP-bioinformatics/rereview/RESULTS-rereview.md: "UniProt places A0A3Q2KRK8 in PTHR13667:SF5, the same subfamily as human O95876, mouse Q8C456 and Xenopus Q32NR9"

GO:0005856 cytoskeleton GO_CC

LSP — Less precise than existing annotation Review score: 2/2

Prediction method: ProtNLM2 · Version: UniProt API snapshot 2026-09-08

Review rationale: Mouse Wdpcp localizes to the actin cytoskeleton and is required to recruit Sept2 to actin filaments, and in Xenopus it acts through septins and actomyosin at the cell cortex; this orthology-based transfer within PANTHER subfamily SF5 supports the term. GO:0005930 axoneme, already carried by this product and accepted in the gene review, is a descendant of GO:0005856 cytoskeleton (OLS4), so the prediction is less specific than an existing supported annotation. The actin-associated pool has no more specific annotation in GOA, but the term as predicted remains an ancestor of the accepted axoneme location.

Supporting Evidence:

PMID:24302887: "in Wdpcp-deficient cells, Sept2 was lost from the actin cytoskeleton, suggesting Wdpcp is required for Sept2 recruitment to actin filaments."
PMID:25436430: "Wdpcp acts via septins and actomyosin to control cell cortex stability during epithelial homeostasis"
PMID:24302887: "Using an antibody raised to Wdpcp, we showed Wdpcp is localized to the ciliary axoneme and in a ring-like structure at the base of the cilia in IMCD3 cells"
file:HORSE/WDPCP/WDPCP-bioinformatics/rereview/RESULTS-rereview.md: "UniProt places A0A3Q2KRK8 in PTHR13667:SF5, the same subfamily as human O95876, mouse Q8C456 and Xenopus Q32NR9"

Gene Description

Existing Annotations Review

Core Functions

Scaffold subunit of the CPLANE complex (with Inturned and Fuzzy) at the ciliary base, contributing to basal-body recruitment of peripheral IFT-A and transition-zone recruitment of septin and MKS/NPHP proteins during cilium organization.

References

Suggested Questions for Experts

Suggested Experiments

External Prediction Reviews

ProtNLM2 External predictions

Deep Research

Cyberian

OpenScientist

📚 Additional Documentation

Notes

Bioinformatics Results

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