ANAPC2 PN Consistency Notes
- Generated: 2026-06-18
- Project: PROTEOSTASIS
- Scope: PN consistency rereview against local AIGR review and available deep-research artifacts
- UniProt: Q9UJX6
- AIGR review status: COMPLETE
- Review batch: proteostasis-batch-2026-06-03 (PR 1367)
- Batch change status: added
Source Files Checked
Deep Research Files
AIGR Review Snapshot
- Description: ANAPC2 encodes anaphase-promoting complex subunit 2, the cullin-like scaffold of the APC/C catalytic module. In the APC/C E3 ubiquitin ligase, ANAPC2 works with the RING subunit ANAPC11 and ubiquitin-conjugating enzymes to ubiquitinate cell-cycle substrates, promoting ordered proteasomal degradation during mitotic progression and mitotic exit. Structural and biochemical studies place ANAPC2 in the APC/C catalytic platform, and APC/C activity is regulated by coactivators, phosphorylation, checkpoint inhibitors, and substrate adaptors in nuclear and cytosolic cell-cycle contexts.
- Existing/core annotation action counts: ACCEPT: 15; KEEP_AS_NON_CORE: 40; MARK_AS_OVER_ANNOTATED: 8; MODIFY: 1; NEW: 1
PN Consistency Summary
- Consistency: Fully consistent. DR ↔ notes ↔ YAML ↔ PN all converge: ANAPC2 is the cullin-like scaffold subunit of the APC/C catalytic module (Apc2-Apc11). No contradiction.
- PN story / NEW pressure: PN projects three terms; review handles each correctly. GO:0005680 already_in_goa → ACCEPT (IBA). GO:0000151 entailed via GO:0005680/GO:0031461 → correctly NOT added. GO:0160072 ubiquitin ligase complex scaffold activity (verified real, new_to_goa): review ADDS as
action: NEW (IC, PMID:26083744) only after gene-level scrutiny of structural literature (Apc2-Apc11 catalytic module; PMID:11739784 minimal module, 16364912). Defensible — APC2 is a degenerate cullin scaffold. Conclude: ADD (GO:0160072), others already captured/entailed.
- Evidence alignment: PN cites PMID:16763193, 21107322, 29167309, 27259151, 31350353. Review uses overlapping structural set (16364912, 26083744, 11739784, 18485873, 29033132) plus DR additions PMID:37735619 (TR cryo-EM E2 docking), 39567505 (APC2 Zn module), 36548081 (DEPTOR substrate) as statement-only. Good overlap on APC/C catalytic-module structure; review enriches with newer cryo-EM.
- Verdict: Consistent; GO:0160072 NEW warranted and matches PN (new_to_goa). GO:0005680 ACCEPT, GO:0000151 correctly entailed. No over-reach.
Full Consistency Review
- UniProt: Q9UJX6 (APC2) · batch: proteostasis-batch-2026-06-03 (Falcon DR 2026-06-07) · review status: COMPLETE
- PN placement: 3 rows, UPS. (1)
…Cullin|degenerate, APC sununit; (2) …idiosyncratic RING complex|Anaphase Promoting Complex|catalytic / core; (3) …Ubiquitin and UBL binding|E3 ligase complex component|APC / catalytic subunit. PN-node mapping: Cullin group=mapped→GO:0160072 scaffold activity (new_to_goa); APC type=mapped→GO:0005680 anaphase-promoting complex (already_in_goa_exact); RING-complex/E3-component groups=mapped→GO:0000151 ubiquitin ligase complex (entailed_by_goa_closure).
- Consistency: Fully consistent. DR ↔ notes ↔ YAML ↔ PN all converge: ANAPC2 is the cullin-like scaffold subunit of the APC/C catalytic module (Apc2-Apc11). No contradiction.
- PN story / NEW pressure: PN projects three terms; review handles each correctly. GO:0005680 already_in_goa → ACCEPT (IBA). GO:0000151 entailed via GO:0005680/GO:0031461 → correctly NOT added. GO:0160072 ubiquitin ligase complex scaffold activity (verified real, new_to_goa): review ADDS as
action: NEW (IC, PMID:26083744) only after gene-level scrutiny of structural literature (Apc2-Apc11 catalytic module; PMID:11739784 minimal module, 16364912). Defensible — APC2 is a degenerate cullin scaffold. Conclude: ADD (GO:0160072), others already captured/entailed.
- Mapping strategy: ANAPC2 supports, rather than changes, the node mappings. The Cullin-group scaffold projection is precisely the term gene-level review accepts; APC and ligase-complex memberships are appropriately already-in/entailed. Scopes (ok_for_propagation) correct; no broader/narrower mismatch.
- Evidence alignment: PN cites PMID:16763193, 21107322, 29167309, 27259151, 31350353. Review uses overlapping structural set (16364912, 26083744, 11739784, 18485873, 29033132) plus DR additions PMID:37735619 (TR cryo-EM E2 docking), 39567505 (APC2 Zn module), 36548081 (DEPTOR substrate) as statement-only. Good overlap on APC/C catalytic-module structure; review enriches with newer cryo-EM.
- Verdict: Consistent; GO:0160072 NEW warranted and matches PN (new_to_goa). GO:0005680 ACCEPT, GO:0000151 correctly entailed. No over-reach.
- Recommended edits: none to ANAPC2-ai-review.yaml; PN mappings sound as-is.
PN Dossier Context
- review_batch: proteostasis-batch-2026-06-03
- review_yaml: genes/human/ANAPC2/ANAPC2-ai-review.yaml
- PN workbook rows: 3
PN row 1: Ubiquitin Proteasome System | E3 ubiquitin and UBL ligases | Cullin | degenerate, APC sununit
- UniProt: Q9UJX6
- In branches: UPS
- Signature domains: IPR001373, IPR059120
- Auxiliary domains: (none)
- PN references (titles):
- PN-node mapping records (path + ancestors):
- [type] Ubiquitin Proteasome System|E3 ubiquitin and UBL ligases|Cullin|degenerate, APC sununit
status=no_mapping scope= GO=[]
rationale: Reviewed manually as a UPS source node. No single GO term is appropriate for direct propagation from this PN label without narrower context or gene-level evidence.
- [group] Ubiquitin Proteasome System|E3 ubiquitin and UBL ligases|Cullin
status=mapped scope=ok_for_propagation_to_go GO=[GO:0160072 ubiquitin ligase complex scaffold activity]
rationale: This PN group captures cullin or cullin-associated scaffold roles in ubiquitin ligase complexes. The shared GO molecular-function target is ubiquitin ligase complex scaffold activity.
- [class] Ubiquitin Proteasome System|E3 ubiquitin and UBL ligases
status=context_only scope=too_broad_to_propagate GO=[GO:0061630 ubiquitin protein ligase activity]
rationale: This class is a genuine E3-ligase context, but its descendants include catalytic ligases, cullin scaffolds, substrate receptors, adaptors, cofactors, regulators, and UBL modifier systems. A class-level propagation would over-annotate.
- [branch] Ubiquitin Proteasome System
status=no_mapping scope= GO=[]
rationale: Reviewed as the top-level UPS branch. It is a project taxonomy umbrella rather than a direct GO assertion; UPS propagation must come from manually curated child nodes.
- UniProt: Q9UJX6
- In branches: UPS
- Signature domains: (none)
- Auxiliary domains: IPR059120
- PN references (titles):
- PN-node mapping records (path + ancestors):
- [subtype] Ubiquitin Proteasome System|E3 ubiquitin and UBL ligases|idiosyncratic RING complex|Anaphase Promoting Complex|catalytic / core
status=no_mapping scope= GO=[]
rationale: Reviewed as a narrower E3-ligase architecture, component, or domain subdivision already covered by the curated parent E3 mapping. No additional direct GO mapping is needed at this node.
- [type] Ubiquitin Proteasome System|E3 ubiquitin and UBL ligases|idiosyncratic RING complex|Anaphase Promoting Complex
status=mapped scope=ok_for_propagation_to_go GO=[GO:0005680 anaphase-promoting complex]
rationale: In 4.3.11, APC/C is nested under the idiosyncratic RING-complex branch rather than appearing as a direct group. The GO cellular-component term anaphase-promoting complex remains the appropriate propagation target.
- [group] Ubiquitin Proteasome System|E3 ubiquitin and UBL ligases|idiosyncratic RING complex
status=mapped scope=ok_for_propagation_to_go GO=[GO:0000151 ubiquitin ligase complex]
rationale: This PN group is an E3 ligase complex bucket. The safest shared GO target is ubiquitin ligase complex membership rather than assigning catalytic activity to every subunit.
- [class] Ubiquitin Proteasome System|E3 ubiquitin and UBL ligases
status=context_only scope=too_broad_to_propagate GO=[GO:0061630 ubiquitin protein ligase activity]
rationale: This class is a genuine E3-ligase context, but its descendants include catalytic ligases, cullin scaffolds, substrate receptors, adaptors, cofactors, regulators, and UBL modifier systems. A class-level propagation would over-annotate.
- [branch] Ubiquitin Proteasome System
status=no_mapping scope= GO=[]
rationale: Reviewed as the top-level UPS branch. It is a project taxonomy umbrella rather than a direct GO assertion; UPS propagation must come from manually curated child nodes.
PN row 3: Ubiquitin Proteasome System | Ubiquitin and UBL binding | E3 ligase complex component | APC / catalytic subunit | idiosyncratic Ub binding / other
- UniProt: Q9UJX6
- In branches: UPS
- Signature domains: PMID: 27259151, PMID: 31350353
- Auxiliary domains: IPR059120
- PN references (titles):
- PN-node mapping records (path + ancestors):
- [subtype] Ubiquitin Proteasome System|Ubiquitin and UBL binding|E3 ligase complex component|APC / catalytic subunit|idiosyncratic Ub binding / other
status=no_mapping scope= GO=[]
rationale: Reviewed as a narrower enzyme-family, domain, or architecture subdivision already covered by a curated parent enzyme mapping. No additional direct GO mapping is needed at this node.
- [type] Ubiquitin Proteasome System|Ubiquitin and UBL binding|E3 ligase complex component|APC / catalytic subunit
status=no_mapping scope= GO=[]
rationale: Reviewed as a narrower enzyme-family, domain, or architecture subdivision already covered by a curated parent enzyme mapping. No additional direct GO mapping is needed at this node.
- [group] Ubiquitin Proteasome System|Ubiquitin and UBL binding|E3 ligase complex component
status=mapped scope=ok_for_propagation_to_go GO=[GO:0000151 ubiquitin ligase complex]
rationale: This PN group captures E3 ligase complex components. The safe shared GO target is ubiquitin ligase complex membership.
- [class] Ubiquitin Proteasome System|Ubiquitin and UBL binding
status=context_only scope=too_broad_to_propagate GO=[GO:0140036 ubiquitin-modified protein reader activity]
rationale: This class records ubiquitin/UBL-reader context, but the subtree mixes ubiquitin, SUMO, UBL-domain, domain-architecture, catalytic, signaling, trafficking, and nucleic-acid process buckets. It is useful context, not a safe direct propagation.
- [branch] Ubiquitin Proteasome System
status=no_mapping scope= GO=[]
rationale: Reviewed as the top-level UPS branch. It is a project taxonomy umbrella rather than a direct GO assertion; UPS propagation must come from manually curated child nodes.
Projected GO annotations (4)
- GO:0160072 ubiquitin ligase complex scaffold activity | scope=ok_for_propagation_to_go | goa_status=new_to_goa | from=Ubiquitin Proteasome System|E3 ubiquitin and UBL ligases|Cullin
- GO:0000151 ubiquitin ligase complex | scope=ok_for_propagation_to_go | goa_status=entailed_by_goa_closure | from=Ubiquitin Proteasome System|E3 ubiquitin and UBL ligases|idiosyncratic RING complex
- GO:0005680 anaphase-promoting complex | scope=ok_for_propagation_to_go | goa_status=already_in_goa_exact | from=Ubiquitin Proteasome System|E3 ubiquitin and UBL ligases|idiosyncratic RING complex|Anaphase Promoting Complex
- GO:0000151 ubiquitin ligase complex | scope=ok_for_propagation_to_go | goa_status=entailed_by_goa_closure | from=Ubiquitin Proteasome System|Ubiquitin and UBL binding|E3 ligase 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.