TRAPPC1 PN Consistency Notes
- Generated: 2026-06-18
- Project: PROTEOSTASIS
- Scope: PN consistency rereview against local AIGR review and available deep-research artifacts
- UniProt: Q9Y5R8
- AIGR review status: COMPLETE
- Review batch: proteostasis-pr-1217 (PR 1217)
- Batch change status: added
Source Files Checked
Deep Research Files
- No
*-deep-research*.md file found in this gene directory.
AIGR Review Snapshot
- Description: TRAPPC1 is a small core subunit of the transport protein particle (TRAPP) complex. It contributes to TRAPP complex architecture and complex-level RAB1 guanine-nucleotide exchange/vesicle-trafficking functions, especially ER-to-Golgi vesicle-mediated transport. Autophagy component recruitment is best understood through TRAPP/TRAPPII/TRAPPIII complex membership rather than independent TRAPPC1 activity.
- Existing/core annotation action counts: ACCEPT: 15; MARK_AS_OVER_ANNOTATED: 6; MODIFY: 4
PN Consistency Summary
- Consistency: Fully consistent. Notes, review YAML and PN converge on TRAPP-complex membership as the strongest gene-level annotation; review ACCEPTs GO:0030008 (IBA+IEA) and TRAPPII/TRAPPIII memberships, and explicitly declines a broad autophagy BP ("avoid adding a broad autophagy BP for TRAPPC1"). No contradictions.
- PN story / NEW pressure: PN's autophagophore-recruitment story is deliberately resolved to complex membership only (GO:0030008, verified real, already in GOA). Review concurs and routes autophagy to TRAPPIII context (GO:1990072) rather than a BP, citing PMID:27066478 "the connection of the mammalian TRAPP III complex to autophagy is currently not clear."
proposed_new_terms: []. Conclude: already captured; no NEW warranted.
- Evidence alignment: Overlap. PN cites the Frontiers "TRAPP Complexes in Secretion and Autophagy" review = review's PMID:27066478 (core). Review enriches with structural (PMID:16828797) and Reactome RAB1-GEF/ER-Golgi evidence PN does not list.
- Verdict: Fully consistent, conservative, well-curated. No edits needed.
Full Consistency Review
- UniProt: Q9Y5R8 (TRAPP subunit 1 / Mum2) · batch: proteostasis-pr-1217 · review status: COMPLETE
- PN placement:
Autophagy-Lysosome Pathway → Autophagophore initiation and elongation → Autophagy component recruitment to autophagophore → TRAPP complex component (1 row, ALP) ; PN-node mapping: leaf type=mapped/ok_for_propagation→GO:0030008 TRAPP complex; group=no_mapping; class=context_only/too_broad→GO:0016236 macroautophagy; branch=no_mapping. Projects GO:0030008 (already_in_goa_exact).
- Consistency: Fully consistent. Notes, review YAML and PN converge on TRAPP-complex membership as the strongest gene-level annotation; review ACCEPTs GO:0030008 (IBA+IEA) and TRAPPII/TRAPPIII memberships, and explicitly declines a broad autophagy BP ("avoid adding a broad autophagy BP for TRAPPC1"). No contradictions.
- PN story / NEW pressure: PN's autophagophore-recruitment story is deliberately resolved to complex membership only (GO:0030008, verified real, already in GOA). Review concurs and routes autophagy to TRAPPIII context (GO:1990072) rather than a BP, citing PMID:27066478 "the connection of the mammalian TRAPP III complex to autophagy is currently not clear."
proposed_new_terms: []. Conclude: already captured; no NEW warranted.
- Mapping strategy: Gene does not change the node. The PN node correctly avoids projecting macroautophagy (the documented "TRAPP-like overpropagation" precedent the rationale itself names) and restricts to the CC GO:0030008. Status/scope right; not broader than the review.
- Evidence alignment: Overlap. PN cites the Frontiers "TRAPP Complexes in Secretion and Autophagy" review = review's PMID:27066478 (core). Review enriches with structural (PMID:16828797) and Reactome RAB1-GEF/ER-Golgi evidence PN does not list.
- Verdict: Fully consistent, conservative, well-curated. No edits needed.
PN Dossier Context
- review_batch: proteostasis-pr-1217
- review_yaml: genes/human/TRAPPC1/TRAPPC1-ai-review.yaml
- PN workbook rows: 1
PN row 1: Autophagy-Lysosome Pathway | Autophagophore initiation and elongation | Autophagy component recruitment to autophagophore | TRAPP complex component
- UniProt: Q9Y5R8
- In branches: ALP
- Notes: TRAPP complex, core subunit. The TRAPP complex serves as a GEF for RAB1. Involved in ATG9 and ATG2 trafficking
- PN references (titles):
- Membrane Trafficking in Autophagy - ScienceDirect
- Frontiers | TRAPP Complexes in Secretion and Autophagy | Cell and Developmental Biology (frontiersin.org)
- PN-node mapping records (path + ancestors):
- [type] Autophagy-Lysosome Pathway|Autophagophore initiation and elongation|Autophagy component recruitment to autophagophore|TRAPP complex component
status=mapped scope=ok_for_propagation_to_go GO=[GO:0030008 TRAPP complex]
rationale: This PN leaf is a curated component bucket for TRAPP subunits used in autophagophore recruitment. The matching GO cellular-component term is TRAPP complex, and the member genes already converge strongly on that assignment in existing GOA.
- [group] Autophagy-Lysosome Pathway|Autophagophore initiation and elongation|Autophagy component recruitment to autophagophore
status=no_mapping scope= GO=[]
rationale: Reviewed as a broad PN taxonomy container. The descendants mix components, regulators, context labels, and mechanistic leaves, so propagation should come only from narrower curated nodes.
- [class] Autophagy-Lysosome Pathway|Autophagophore initiation and elongation
status=context_only scope=too_broad_to_propagate GO=[GO:0016236 macroautophagy]
rationale: This class is a real macroautophagy context, but its descendants include core factors, component buckets, upstream modulators, localization roles, and residual categories. Projecting generic macroautophagy from this ancestor creates TRAPP-like overpropagation, so candidate GO annotations must come from narrower curated nodes.
- [branch] Autophagy-Lysosome Pathway
status=no_mapping scope= GO=[]
rationale: Reviewed as the top-level PN branch. It is a project taxonomy umbrella rather than a direct GO assertion; all propagation must come from manually curated child nodes.
Projected GO annotations (1)
- GO:0030008 TRAPP complex | scope=ok_for_propagation_to_go | goa_status=already_in_goa_exact | from=Autophagy-Lysosome Pathway|Autophagophore initiation and elongation|Autophagy component recruitment to autophagophore|TRAPP complex component
Note
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.