All families / PF06006
PF06006: DUF905
Bacterial protein of unknown function (DUF905)
- Curation status
- SEEDED
- Seed status
- UNKNOWN CANDIDATE
- Characterization
- UNSCORED
Grounding
PF06006: Bacterial protein of unknown function (DUF905)
IPR009253: integrated entry for Bacterial protein of unknown function (DUF905)
Source description
This family consists of several short hypothetical Enterobacteria proteins of unknown function. Structural analysis of the surface features of the protein YvyC has revealed a single cluster of highly conserved residues on the surface. Additionally, these residues fall into two groups which lie within the two largest of the three cavities identified over the surface. The conclusion from this is that these two cavities with, Leu 58, Glu 75, Ile 82, and Glu 83 and Pro 86, conserved, are likely to be important for the molecular function and reflect the cavities found on the surface of the FlaG proteins in PF03646 (Pfam entry).
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 |
|---|---|---|---|
| P58095 | Putative UPF0401 protein YpjI Escherichia coli (strain K12) | 90 aa; version 1 UniProt 2026_03 | UNIPROT FETCH |
| P75677 | UPF0401 protein YkfF Escherichia coli (strain K12) | 79 aa; version 1 UniProt 2026_03 | UNIPROT FETCH |
| Q9JMR3 | UPF0401 protein YubL Escherichia coli (strain K12) | 79 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
- 221
- matches
- 221
- proteomes
- 132
- taxa
- 241
- structures
- 1
- alphafold models
- 124
- domain architectures
- 3
Classification basis
short name matches duf; name says unknown function; description says unknown function
No scoring reasons supplied.
Related Mech records
| Family | Mech | Record | Protein | Link basis |
|---|---|---|---|---|
| DUF905 (PF06006) | ProteinTraitsMech | Bacterial protein of unknown function (DUF905) | P58095 Putative UPF0401 protein YpjI | canonical example family classification |
| DUF905 (PF06006) | ProteinTraitsMech | Bacterial protein of unknown function (DUF905) | P75677 UPF0401 protein YkfF | canonical example family classification |
| DUF905 (PF06006) | ProteinTraitsMech | Bacterial protein of unknown function (DUF905) | Q9JMR3 UPF0401 protein YubL | canonical example family classification |
| DUF905 (PF06006) | ProteinTraitsMech | Bacterial protein of unknown function (DUF905) | trait identifier | |
| DUF905 (PF06006) | ProteinTraitsMech | YkfF-like domain superfamily | P58095 Putative UPF0401 protein YpjI | canonical example family classification |
| DUF905 (PF06006) | ProteinTraitsMech | YkfF-like domain superfamily | P75677 UPF0401 protein YkfF | canonical example family classification |
| DUF905 (PF06006) | ProteinTraitsMech | YkfF-like domain superfamily | Q9JMR3 UPF0401 protein YubL | canonical example family classification |
| DUF905 (PF06006) | ProteinTraitsMech | ykff protein like domains | P58095 Putative UPF0401 protein YpjI | canonical example family classification |
| DUF905 (PF06006) | ProteinTraitsMech | ykff protein like domains | P75677 UPF0401 protein YkfF | canonical example family classification |
| DUF905 (PF06006) | ProteinTraitsMech | ykff protein like domains | Q9JMR3 UPF0401 protein YubL | 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.