All families / PF12379
PF12379: bCoV_NSP3_N
Betacoronavirus replicase NSP3, N-terminal
- Curation status
- SEEDED
- Seed status
- EX DUF
- Characterization
- UNSCORED
Grounding
PF12379: Betacoronavirus replicase NSP3, N-terminal
IPR024358: integrated entry for Betacoronavirus replicase NSP3, N-terminal
Source description
This domain family corresponds to the N-terminal domain of NSP3 (non-structural protein 3, also known as nsp3) found in Betacoronavirus, which is encoded on the replicase polyprotein. This family includes the NSP3a domain which has the ubiquitin-like 1 (UB1) and glutamic acid-rich acidic (AC) hypervariable domains [InterPro reference PUB00094113]. NSP3a interacts with numerous other proteins involved in replication and transcription and may serve as a scaffolding protein for these processes. The N-terminal NSP3a domain interacts with N (nucleocapsid) protein to colocalise genomic RNA with the nascent replicase-transcriptase complex at the earliest stages of infection, essential for the virus [InterPro reference PUB00094112]. The C-terminal Glu-rich subdomain is best described as a flexible tail attached to the globular UB1 subdomain [InterPro reference PUB00047544]. The family is found in association with PF08716 (Pfam entry), PF01661 (Macro domain), PF05409 (Pfam entry), PF06471 (Pfam entry), PF08717 (Pfam entry), PF06478 (Pfam entry), PF09401 (Pfam entry), PF06460 (Pfam entry), PF08715 (Pfam entry), PF08710 (Pfam entry).
Evidence and references
- InterPro entry and its literature references. PUB identifiers are internal InterPro references, not PubMed identifiers. Unresolved citations link to the originating entry.
- Frozen description source: InterPro/Pfam API
Source descriptions and links are provenance, not independent functional validation.
Evidence counts: not scored.
Curated functional assertions
No curated functional assertions supplied.
Protein sequence examples
6 verified sequence examples. FASTA
| UniProt | Protein / organism | Sequence | Provenance |
|---|---|---|---|
| P0C6F5 | Replicase polyprotein 1a Bat coronavirus 279/2005 | 4388 aa; version 1 UniProt 2026_03 | UNIPROT FETCH |
| P0C6F8 | Replicase polyprotein 1a Bat coronavirus HKU3 | 4376 aa; version 1 UniProt 2026_03 | UNIPROT FETCH11 sibling references
|
| P0C6U8 | Replicase polyprotein 1a Severe acute respiratory syndrome coronavirus | 4382 aa; version 1 UniProt 2026_03 | UNIPROT FETCH2 sibling references |
| P0C6V9 | Replicase polyprotein 1ab Bat coronavirus 279/2005 | 7079 aa; version 1 UniProt 2026_03 | UNIPROT FETCH |
| P0DTC1 | Replicase polyprotein 1a Severe acute respiratory syndrome coronavirus 2 | 4405 aa; version 1 UniProt 2026_03 | UNIPROT FETCH1 sibling references |
| P0DTD1 | Replicase polyprotein 1ab Severe acute respiratory syndrome coronavirus 2 | 7096 aa; version 1 UniProt 2026_03 | UNIPROT FETCH |
Pfam membership is not functional evidence. Whole-protein sequences do not establish domain boundaries. A coverage gap here is not absence from UniProt.
Sequences and metadata: UniProt Consortium, CC BY 4.0.
Domain matches
No residue-level domain match evidence is available in this build. Structure and AlphaFold counters do not supply coordinates or establish function.
Snapshot counters
- proteins
- 308
- matches
- 308
- proteomes
- 3
- taxa
- 63
- structures
- 17
- alphafold models
- 7
- domain architectures
- 21
Classification basis
pfam previous unknown name
No scoring reasons supplied.
Related Mech records
This family joined the worklist after the frozen cross-Mech scan, so other Mechs were not searched for it. Missing links here are not evidence that other Mechs lack it; rows shown come from mentions of a former DUF/UPF name.
No cross-Mech examples are present in the supplied snapshot.
Curation history and reviews
No retained curation events supplied.
No retained review supplied.
Record source
Status and evidence
- Seed status
- A name-based classification of frozen InterPro/Pfam metadata. UNKNOWN CANDIDATE means the metadata explicitly says the function is unknown. KNOWN HISTORICAL DUF means a DUF name matched without that wording; this heuristic is not proof of a known function and does not establish experimental characterization. EX DUF means Pfam renamed the family away from a DUF/UPF name, as recorded in Pfam's previous identifiers; a rename usually follows published work on some members but is naming history, not proof of function for every member. Some EX DUF families' current names or descriptions still say the function is unknown; their classification basis lists this, and scoring does not treat them as characterized. FALSE POSITIVE TEXT HIT means the naming rules did not match.
- Characterization
- A separate evidence-scoring result. UNSCORED means no score has been calculated; it is not evidence that the family lacks a known function. Missing scores are not negative evidence. PARTIALLY CHARACTERIZED has partial support; KNOWN HISTORICAL DUF can inherit the seed label or reflect a known-function signal. Neither label implies experimental validation.
- Evidence counts
- Source-specific signals, not unique proteins, publications, or confidence scores. Known counts Rhea reactions and experimentally supported GO molecular-function annotations. Partial counts functional/domain assignments. Context counts structural, environmental, orthology, interaction and neighborhood signals; context alone does not assign function. Repeated annotations may not be independent.
- Curation status
- Reported separately from seed classification and characterization. SNAPSHOT ONLY means no curated metadata was supplied for this build. SEEDED denotes a source-derived record, not an expert-reviewed functional claim.
- Missing counts
- Not available means the source did not supply that counter. A zero is a reported count. Not scored means evidence counts are unavailable.