Pcf11 (C0P8M6): evidence and ProtNLM claim review

The C0P8M6 Pcf11 record encodes an 86-residue protein consisting largely of a CTD-interacting domain. Full-length Drosophila Pcf11 participates in RNA polymerase II transcription termination, but the activities and intracellular distribution of this short translation product are unresolved.

Exact input: C0P8M6, 86 residues. The accession was fetched explicitly with the gene-directory alias; no canonical-sequence substitution is made.

Raw emitted predictions: Pcf11-predictions-source.json. Source features: Pcf11-uniprot.txt, with an exact extraction in Pcf11-sequence-evidence.json.

Sequence and domain evidence

These are sequence/domain observations or explicitly named feature predictions, not measurements of biological function. ARBA assertions and ProtNLM-derived UniProt names are not counted as validation.

DR   InterPro; IPR006569; CID_dom.
DR   InterPro; IPR008942; ENTH_VHS.
DR   InterPro; IPR045154; PCF11-like.
FT   DOMAIN          11..86
FT                   /note="CID"
FT                   /evidence="ECO:0000259|PROSITE:PS51391"

ProtNLM claims

The snapshot emits names and location/keyword statements, with no GO or EC prediction for this target. Each actual statement is assessed below; no GO term has been substituted for it. Categories follow the function-prediction rubric, with nonspecific “uncharacterized” names marked UNC because they contain no testable function. CNN records an independently supported existing annotation; it does not assert a particular training-set composition.

Kind	Verbatim emitted statement	Assessment	Evidence and limitation
Name	CID domain-containing protein	CNN	IPR006569 identifies a CID domain at residues 11-86 in the exact 86-residue product. This modest domain claim is supported without transferring full-length Pcf11 activity.
Location	Cytoplasm (SL-0086)	UNC	Cytoplasmic localization of the 86-residue product is not demonstrated. Full-length Pcf11 localization and function cannot settle the compartment of this exact short record.
Location	Nucleus (SL-0191)	UNC	Nuclear residence is plausible for a CID-containing Pcf11-derived product but remains unresolved for this 86-residue sequence. A mapped construct or isoform localization experiment is needed.

Literature evidence

No target-specific primary finding is used to establish a molecular activity here. The current assessment is bounded by exact-record architecture and the explicitly identified curated inferences.

Annotation decisions

GO:0000993 RNA polymerase II complex binding (IEA): UNDECIDED. A CID hit spanning residues 11-86 supports CTD-interaction potential but does not demonstrate RNA polymerase II complex binding by the exact 86-residue product.
GO:0003723 RNA binding (IDA): UNDECIDED. PMID:16387654 concerns Pcf11 biochemical activity. The exact benchmark product is only 86 residues and requires construct or isoform mapping before the experimental RNA-binding result can be attributed to it.
GO:0003729 mRNA binding (IEA): UNDECIDED. The truncated domain-bearing record cannot be assumed to retain full-length Pcf11 RNA-binding activity; exact-product or mapped-construct evidence is needed.
GO:0006369 termination of RNA polymerase II transcription (IEA): UNDECIDED. A single 86-residue CID-containing product may not execute the full-length protein function. This is an isoform-resolution limitation and not evidence against the experimentally established gene-level role.
GO:0010467 gene expression (IEA): UNDECIDED. The broad computational annotation cannot establish that the 86-residue product is produced or functionally contributes to gene expression in vivo.
GO:0031124 mRNA 3'-end processing (IEA): UNDECIDED. The source sequence lacks most of the full-length Pcf11 architecture; domain presence does not establish assembly into the processing machinery.
GO:0032991 protein-containing complex (IEA): UNDECIDED. The 86-residue sequence has a CID-family segment but no exact-product demonstration of complex incorporation.

Research provenance

Genuine external literature research is requested through the repository Falcon wrapper, with perplexity-lite configured as fallback. Provider output is retained separately as Pcf11-deep-research-<provider>.md; its source leads are checked against the underlying publications and exact sequence record.