All families / PF04359
PF04359: DUF493
Protein of unknown function (DUF493)
- Curation status
- SEEDED
- Seed status
- UNKNOWN CANDIDATE
- Characterization
- UNSCORED
Grounding
PF04359: Protein of unknown function (DUF493)
IPR007454: integrated entry for Protein of unknown function (DUF493)
Source description
This domain is likely to act in a regulatory capacity like PF01842 (Pfam entry) domains. This domain has a remarkable property in that the C-terminal residue of every protein in the family lies up in the alignment. This suggests that the C-terminal residue plays some important functional role (Bateman A pers obs).
Evidence and references
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
3 verified sequence examples. FASTA
| UniProt | Protein / organism | Sequence | Provenance |
|---|---|---|---|
| A1AWI6 | UPF0250 protein Rmag_0541 Ruthia magnifica subsp. Calyptogena magnifica | 92 aa; version 1 UniProt 2026_03 | UNIPROT FETCH1 sibling references |
| A4XYX5 | UPF0250 protein Pmen_3793 Ectopseudomonas mendocina (strain ymp) | 92 aa; version 1 UniProt 2026_03 | UNIPROT FETCH1 sibling references |
| P0A8J4 | UPF0250 protein YbeD Escherichia coli (strain K12) | 87 aa; version 1 UniProt 2026_03 | PTM REGISTRY MIRROR |
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
- 6,695
- matches
- 6,695
- proteomes
- 6,234
- taxa
- 9,203
- structures
- 3
- alphafold models
- 4,578
- domain architectures
- 13
Classification basis
short name matches duf; name says unknown function
No scoring reasons supplied.
Related Mech records
| Family | Mech | Record | Protein | Link basis |
|---|---|---|---|---|
| DUF493 (PF04359) | ProteinTraitsMech | DUF493 family protein YbeD | P0A8J4 UPF0250 protein YbeD | canonical example family classification |
| DUF493 (PF04359) | ProteinTraitsMech | Protein of unknown function (DUF493) | A1AWI6 UPF0250 protein Rmag_0541 | canonical example family classification |
| DUF493 (PF04359) | ProteinTraitsMech | Protein of unknown function (DUF493) | A4XYX5 UPF0250 protein Pmen_3793 | canonical example family classification |
| DUF493 (PF04359) | ProteinTraitsMech | Protein of unknown function (DUF493) | P0A8J4 UPF0250 protein YbeD | canonical example family classification |
| DUF493 (PF04359) | ProteinTraitsMech | Protein of unknown function (DUF493) | trait identifier | |
| DUF493 (PF04359) | ProteinTraitsMech | YbeD-like domain superfamily | P0A8J4 UPF0250 protein YbeD | canonical example family classification |
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.