All families / PF06544
PF06544: Prp3_C
Small nuclear ribonucleoprotein Prp3, C-terminal domain
- Curation status
- SEEDED
- Seed status
- EX DUF
- Characterization
- UNSCORED
Grounding
PF06544: Small nuclear ribonucleoprotein Prp3, C-terminal domain
IPR010541: integrated entry for Small nuclear ribonucleoprotein Prp3, C-terminal domain
Source description
This domain is found at the C-terminal end of U4/U6 and U4/U5/U6- small nuclear ribonucleoprotein Prp3, part of the tri-RNA complex that form the spliceosome. Prp3 plays a key role in the recognition of the snRNA duplex. This binding domain, highly conserved among eukaryotes, interacts with the 3' end of U6 snRNA. It adopts a ferredoxin-like fold, showing a five-stranded mixed beta-sheet with three alpha-helices, two of them running parallel to the beta-strands on one side of the sheet and one on the other. This fold is extended with a long beta-hairpin, an extra beta-strand, an helix and a final loop at the C terminus. It is located C-terminal to PF08572 (Pfam entry) [InterPro reference PUB00100665,InterPro reference PUB00100667,InterPro reference PUB00100664,InterPro reference PUB00100666].
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
8 verified sequence examples. FASTA
| UniProt | Protein / organism | Sequence | Provenance |
|---|---|---|---|
| O43395 | U4/U6 small nuclear ribonucleoprotein Prp3 Homo sapiens | 683 aa; version 2 UniProt 2026_03 | PTM REGISTRY MIRROR11 sibling references
|
| P57060 | RWD domain-containing protein 2B Homo sapiens | 319 aa; version 1 UniProt 2026_03 | UNIPROT FETCH |
| Q03338 | U4/U6 small nuclear ribonucleoprotein PRP3 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | 469 aa; version 1 UniProt 2026_03 | UNIPROT FETCH |
| Q922U1 | U4/U6 small nuclear ribonucleoprotein Prp3 Mus musculus | 683 aa; version 1 UniProt 2026_03 | UNIPROT FETCH10 sibling references
|
| Q99M03 | RWD domain-containing protein 2B Mus musculus | 290 aa; version 1 UniProt 2026_03 | UNIPROT FETCH |
| Q9C7E7 | Protein RDM16 Arabidopsis thaliana | 786 aa; version 1 UniProt 2026_03 | UNIPROT FETCH |
| Q9D9S3 | RWD domain-containing protein 2A Mus musculus | 292 aa; version 1 UniProt 2026_03 | UNIPROT FETCH |
| Q9UIY3 | RWD domain-containing protein 2A Homo sapiens | 292 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
- 7,079
- matches
- 7,097
- proteomes
- 3,389
- taxa
- 8,940
- structures
- 35
- alphafold models
- 6,124
- domain architectures
- 123
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.