ProtNLM2 External predictions
View prediction review YAML · UBE2F-protnlm-predictions-review.yaml · Review status: COMPLETE
The short UBE2F product lacks the catalytic cysteine and most of the E2 core. Intrinsic ubiquitin transfer is unsupported and contradicted by sequence and NEDD8 specificity; indirect ubiquitination involvement cannot be established for this product.
Source documents: genes/human/UBE2F/UBE2F-protnlm-source.json · genes/human/UBE2F/UBE2F-notes.md
Review score: 2 = concordant with evidence; 1 = uncertain; 0 = discordant with evidence. This is an assessment score, not a model probability.
NPI — Nonparalog incorrect Review score: 0/2
Prediction method: ProtNLM2 · Version: UniProt API snapshot 2026-09-10 · file:human/UBE2F/UBE2F-protnlm-source.json
DOMAIN ARCHITECTURE MISMATCH
Review rationale: F8WDQ9 lacks the reference UBE2F catalytic Cys116 and a complete UBC core. Moreover, the characterized full-length enzyme conjugates NEDD8, not ubiquitin. A UBC-domain match does not establish ubiquitin-protein transferase activity.
Supporting Evidence:
- file:human/UBE2F/UBE2F-bioinformatics/RESULTS.md: "| Active site: Glycyl thioester intermediate | 116–116 | 0 / 1 | 0 |"
- PMID:19250909: "the previously uncharacterized E2 UBE2F is a NEDD8-conjugating enzyme in vitro and in vivo."
UNC — Uncertain Review score: 1/2
Prediction method: ProtNLM2 · Version: UniProt API snapshot 2026-09-10 · file:human/UBE2F/UBE2F-protnlm-source.json
Review rationale: Full-length UBE2F supports CUL5-dependent ubiquitination through NEDD8 conjugation, so this biological process is not intrinsically incompatible with the gene. The 101-residue selected product lacks the catalytic E2 site and has no demonstrated assembly or regulatory function; its participation in protein ubiquitination is unresolved.
Supporting Evidence:
- file:human/UBE2F/UBE2F-bioinformatics/RESULTS.md: "| Active site: Glycyl thioester intermediate | 116–116 | 0 / 1 | 0 |"
- PMID:23300442: "conjugation of NEDD8 to Cullin-5 by the NEDD8-conjugating enzyme UBE2F is required for HIV Vif-mediated degradation"