TRAPPC11 PN Consistency Notes
- Generated: 2026-06-18
- Project: PROTEOSTASIS
- Scope: PN consistency rereview against local AIGR review and available deep-research artifacts
- UniProt: Q7Z392
- AIGR review status: COMPLETE
- Review batch: proteostasis-pr-1217 (PR 1217)
- Batch change status: added
Source Files Checked
Deep Research Files
AIGR Review Snapshot
- Description: TRAPPC11 (C4orf41/Gryzun) is a metazoan TRAPP/TRAPPIII-associated subunit. It stabilizes mammalian TRAPP architecture and contributes to early secretory pathway trafficking between the ER, ERGIC, and Golgi. Patient-cell evidence also supports a TRAPPC11 role in starvation-induced autophagic flux and autophagosome sealing. As a TRAPPIII-associated subunit, TRAPPC11 is connected to TRAPP complex membership, complex-level RAB1 GEF activity, ER-to-Golgi transport, TRAPP complex stability, and autophagosome maturation.
- Existing/core annotation action counts: ACCEPT: 10; KEEP_AS_NON_CORE: 1; MARK_AS_OVER_ANNOTATED: 1; MODIFY: 2; NEW: 1
PN Consistency Summary
- Consistency: Consistent, with the review going beyond PN. Falcon deep research (the only one of the six that completed) plus notes and YAML agree on TRAPPIII membership + early-secretory ER/ERGIC/Golgi traffic + TRAPP-stability, AND add a direct autophagy role from PMID:31575891 (patient fibroblasts fail autophagic flux / fail to seal isolation membranes). No contradictions; the review supplements the PN complex-only mapping with a gene-specific autophagy BP.
- PN story / NEW pressure: PN restricts to GO:0030008 membership, but TRAPPC11 has direct human autophagy evidence the PN node does not project. Review adds GO:0097352 autophagosome maturation as
NEW (verified real via OLS; absent from GOA, confirmed). Caveat (verified): GO:0097352's definition is "removal of PI3P/Atg8-LC3 after phagophore closure" (a disassembly step), whereas PMID:31575891 describes a failure to seal/close isolation membranes — which maps more naturally to GO:0000045 autophagosome assembly. The NEW term direction is defensible but slightly off the cited mechanism. Conclude: ADD an autophagy BP (defensible), but reconsider GO:0097352 vs GO:0000045 for the sealing/closure phenotype.
- Evidence alignment: Overlap on TRAPP: PN cites PMID:27066478 + Frontiers review = review core. Review enriches with PMID:21525244 (TRAPP identification), 19942856 (Golgi-exit screen), 27862579 (CDG), and 31575891 (autophagy, PN does not list).
- Verdict: Consistent; one substantive curation question. Recommended edits: in TRAPPC11-ai-review.yaml, reconsider the
NEW GO:0097352 autophagosome maturation against GO:0000045 autophagosome assembly, since PMID:31575891 evidence concerns isolation-membrane sealing/closure, not the post-closure PI3P/LC3-removal step GO:0097352 defines.
Full Consistency Review
- UniProt: Q7Z392 (C4orf41/Gryzun) · 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: Consistent, with the review going beyond PN. Falcon deep research (the only one of the six that completed) plus notes and YAML agree on TRAPPIII membership + early-secretory ER/ERGIC/Golgi traffic + TRAPP-stability, AND add a direct autophagy role from PMID:31575891 (patient fibroblasts fail autophagic flux / fail to seal isolation membranes). No contradictions; the review supplements the PN complex-only mapping with a gene-specific autophagy BP.
- PN story / NEW pressure: PN restricts to GO:0030008 membership, but TRAPPC11 has direct human autophagy evidence the PN node does not project. Review adds GO:0097352 autophagosome maturation as
NEW (verified real via OLS; absent from GOA, confirmed). Caveat (verified): GO:0097352's definition is "removal of PI3P/Atg8-LC3 after phagophore closure" (a disassembly step), whereas PMID:31575891 describes a failure to seal/close isolation membranes — which maps more naturally to GO:0000045 autophagosome assembly. The NEW term direction is defensible but slightly off the cited mechanism. Conclude: ADD an autophagy BP (defensible), but reconsider GO:0097352 vs GO:0000045 for the sealing/closure phenotype.
- Mapping strategy: Gene does not change the TRAPP node (GO:0030008 correct). The autophagy addition is gene-specific and correctly NOT propagated from the shared TRAPP bucket.
- Evidence alignment: Overlap on TRAPP: PN cites PMID:27066478 + Frontiers review = review core. Review enriches with PMID:21525244 (TRAPP identification), 19942856 (Golgi-exit screen), 27862579 (CDG), and 31575891 (autophagy, PN does not list).
- Verdict: Consistent; one substantive curation question. Recommended edits: in TRAPPC11-ai-review.yaml, reconsider the
NEW GO:0097352 autophagosome maturation against GO:0000045 autophagosome assembly, since PMID:31575891 evidence concerns isolation-membrane sealing/closure, not the post-closure PI3P/LC3-removal step GO:0097352 defines.
PN Dossier Context
- review_batch: proteostasis-pr-1217
- review_yaml: genes/human/TRAPPC11/TRAPPC11-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: Q7Z392
- In branches: ALP
- Notes: TRAPP III complex, specific 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.