All families / PF01938
PF01938: TRAM
TRAM domain
- Curation status
- SEEDED
- Seed status
- EX DUF
- Characterization
- UNSCORED
Grounding
PF01938: TRAM domain
IPR002792: integrated entry for TRAM domain
Source description
This small domain has no known function. However it may perform a nucleic acid binding role (Bateman A. unpublished observation).
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
13 verified sequence examples. FASTA
| UniProt | Protein / organism | Sequence | Provenance |
|---|---|---|---|
| O31503 | 23S rRNA (uracil-C(5))-methyltransferase RlmCD Bacillus subtilis (strain 168) | 459 aa; version 1 UniProt 2026_03 | PTM REGISTRY MIRROR |
| O31778 | tRNA-2-methylthio-N(6)-dimethylallyladenosine synthase Bacillus subtilis (strain 168) | 509 aa; version 1 UniProt 2026_03 | PTM REGISTRY MIRROR2 sibling references |
| P0AEI1 | tRNA-2-methylthio-N(6)-dimethylallyladenosine synthase Escherichia coli (strain K12) | 474 aa; version 1 UniProt 2026_03 | PTM REGISTRY MIRROR2 sibling references |
| P33753 | tRNA (uracil(54)-C(5))-methyltransferase Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | 639 aa; version 2 UniProt 2026_03 | UNIPROT FETCH2 sibling references |
| P54462 | Threonylcarbamoyladenosine tRNA methylthiotransferase MtaB Bacillus subtilis (strain 168) | 451 aa; version 1 UniProt 2026_03 | UNIPROT FETCH1 sibling references |
| P55135 | 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD Escherichia coli (strain K12) | 433 aa; version 3 UniProt 2026_03 | PTM REGISTRY MIRROR |
| Q58074 | Uncharacterized protein MJ0660 Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) | 77 aa; version 1 UniProt 2026_03 | UNIPROT FETCH1 sibling references |
| Q58277 | Probable threonylcarbamoyladenosine tRNA methylthiotransferase Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) | 427 aa; version 1 UniProt 2026_03 | UNIPROT FETCH1 sibling references |
| Q59015 | Uncharacterized protein MJ1620 Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) | 505 aa; version 1 UniProt 2026_03 | UNIPROT FETCH1 sibling references |
| Q5VV42 | Threonylcarbamoyladenosine tRNA methylthiotransferase Homo sapiens | 579 aa; version 1 UniProt 2026_03 | PTM REGISTRY MIRROR2 sibling references |
First 10 shown; the FASTA and family JSON contain all examples.
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
- 35,071
- matches
- 35,074
- proteomes
- 19,606
- taxa
- 31,439
- structures
- 18
- alphafold models
- 24,317
- 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.