Rv0941c Family assigned · medium auto-curated
H37Rv Rv0941c · MTBC0 mtbc0_000999 ·
257 aa · 1054761–1055534 (-) ·
RefSeq NP_215456.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | STAS domain-containing protein |
| Revised (this work) | STAS domain-containing protein. Pfam: STAS (PF01740.27). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P71568
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | STAS domain-containing protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
T Signal transduction mechanisms
|
|---|---|
| eggNOG description | Belongs to the anti-sigma-factor antagonist family |
| Orthologous group | COG1366 |
Orthology-based transfer (eggNOG 5.0.2, diamond). EC/KO/GO/CAZy are computed annotations, not manual curation; cross-check against the primary literature before treating a specific reaction as established.
Conservation & selection (intra-MTBC, 145 209 strains)
| pN/pS | 0.36 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 synonymous, 2 missense, 0 nonsense, 0 frameshift |
pN/pS from segregating SNPs (singletons removed) normalised by possible sites. Low pN/pS = purifying selection (a strong signal that a "hypothetical" is a real, constrained gene). A high pN/pS is ambiguous: relaxed constraint or positive selection (drug resistance, antigenic variation) inflate it; e.g. rpoB/katG/pncA score high here for resistance, not loss of function. A clonal disruption (one allele over a clade) suggests lineage pseudogenisation; a convergent one (many independent alleles) is typical of resistance loss-of-function.
Domains (Pfam, hmmscan --cut_ga)
| Pfam | Accession | i-Evalue | Residues | Description |
|---|---|---|---|---|
STAS | PF01740.27 | 4.5e-15 | 16–120 | STAS domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0940c (oxidoreductase), medium confidence from genomic context alone (score 622 excluding text-mining). This association is the citable seed of a function hypothesis for this hypothetical protein.
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1906c hyp |
hypothetical protein | 716 | 716 ctx | cooccurence:715 |
Rv2721c hyp |
hypothetical protein | 686 | 686 ctx | cooccurence:685 |
Rv0940c |
oxidoreductase | 622 | 622 ctx | neighborhood:601 |
Rv2015c hyp |
hypothetical protein | 597 | 598 ctx | cooccurence:595 |
Rv3351c hyp |
hypothetical protein | 595 | 595 ctx | cooccurence:594 |
Rv1203c hyp |
hypothetical protein | 594 | 595 ctx | cooccurence:592 |
Rv0176 |
Mce associated transmembrane protein | 577 | 577 ctx | cooccurence:573 |
Rv1904 hyp |
hypothetical protein | 575 | 575 ctx | cooccurence:571 |
Rv0942 hyp |
hypothetical protein | 572 | 572 ctx | neighborhood:571 |
Rv0258c hyp |
hypothetical protein | 562 | 562 ctx | cooccurence:561 |
Rv1765c hyp |
hypothetical protein | 539 | 540 ctx | cooccurence:537 |
Rv0441c hyp |
hypothetical protein | 529 | 529 ctx | cooccurence:529 |
Rv3810 pirG |
cell surface protein | 527 | 527 ctx | cooccurence:525 |
Rv0332 hyp |
hypothetical protein | 522 | 523 ctx | cooccurence:518 |
Rv3577 hyp |
hypothetical protein | 512 | 512 ctx | cooccurence:509 |
STRING combines evidence channels (neighborhood, fusion, cooccurrence, coexpression, experimental, database, text-mining) into a 0–1000 score. The ctx badge marks edges carried by the genomic-context channels (conserved neighborhood, fusion, phylogenetic co-occurrence), which are independent of orthology and structure and the strongest signal for an unknown gene. The no text-mining column recomputes the score from data alone, so a link that does not depend on the literature is visible. Association is a function hypothesis, not proof: corroborate with the operon context and the primary literature before assigning a function.
Evidence
- Legacy H37Rv annotation: hypothetical protein
- MTBC0 PGAP product: STAS domain-containing protein
- Pfam (hmmscan --cut_ga): STAS PF01740.27 (E=4e-15)
- (auto-curated by rules from PGAP + Pfam + Foldseek; not hand-reviewed)
Sources
- Ancestral sequence & coordinates: Harrison LB et al. (2024), An imputed ancestral reference genome for the MTBC, doi:10.1101/2023.09.07.556366
- Product annotation: NCBI PGAP on MTBC0; legacy from H37Rv NC_000962.3 (RefSeq NP_215456.1)
- Domains: Pfam-A via hmmscan --cut_ga — STAS (PF01740.27)
- Sequence-level signal: ESM Atlas (EvolutionaryScale × BioHub) — exploratory
- Controlled vocabulary: eggNOG-mapper 2.1.12 (Cantalapiedra et al. 2021,
doi:10.1093/molbev/msab293), eggNOG 5.0 DB
(Huerta-Cepas et al. 2019) — OG
COG1366 - Curated reference: UniProt P71568 (TrEMBL, unreviewed; Evidence at protein level)
- Intra-MTBC selection: pN/pS and disruption from SPDI variants of 145 209 MTBC strains (this work, local collection vs H37Rv NC_000962.3)
- Interaction network: STRING v12.0 (Szklarczyk et al. 2023,
doi:10.1093/nar/gkac1000), taxon 83332, CC-BY 4.0 —
39 functional partner(s); context anchor
Rv0940c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000999|Rv0941c| MVAVSTAAKSPTALAIAVRTQDSVVILTADGALDSSSSALLRDSLTRATLEQPSAVIVNVTELQVAEESAWSVFISARWQADFRADVPVLLVCGHRAGRAAVTRTGVARFMPVYPTEKAASKAIGRLARRNFKRSDAQLPANLNSLRESRQLVREWLTQWSRPGLIPVALVVVNVFVENVLKHTGSDPVMRIESDGPTATIAVSDGSSAPAVRLASPPKGIDVSGLAIVAALSRAWGSSPTSSGKTVWAIIGPENQL