Rv1337 Family assigned · medium auto-curated
H37Rv Rv1337 · MTBC0 mtbc0_001434 ·
240 aa · 1515058–1515780 (+) ·
RefSeq NP_215853.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | integral membrane protein |
|---|---|
| MTBC0 PGAP re-annotation | rhomboid family intramembrane serine protease |
| Revised (this work) | Rhomboid family intramembrane serine protease. Pfam: Rhomboid (PF01694.29). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WM21
SwissProt · reviewed
· Predicted
|
|---|---|
| UniProt name | Uncharacterized protein Rv1337 |
UniProt still lists this protein as Uncharacterized protein Rv1337; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | membrane |
| Orthologous group | COG0705 |
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 | n/a |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 0 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 |
|---|---|---|---|---|
Rhomboid | PF01694.29 | 5.2e-26 | 76–219 | Rhomboid domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: murI (glutamate racemase), high confidence from genomic context alone (score 907 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1338 murI |
glutamate racemase | 966 | 907 ctx | neighborhood:881 textmining:650 |
Rv1336 cysM |
O-phosphoserine sulfhydrylase | 960 | 905 ctx | neighborhood:881 textmining:594 |
Rv1335 cysO |
sulfur carrier protein CysO | 896 | 897 ctx | neighborhood:876 |
Rv1332 |
transcriptional regulator | 890 | 874 ctx | neighborhood:829 |
Rv1334 mec |
[CysO | 861 | 858 ctx | neighborhood:847 |
Rv1333 |
hydrolase | 874 | 855 ctx | neighborhood:847 |
Rv1331 clpS |
ATP-dependent Clp protease adapter protein ClpS | 850 | 832 ctx | neighborhood:829 |
Rv1329c dinG |
ATP-dependent helicase DinG | 760 | 759 ctx | neighborhood:725 |
Rv1339 hyp |
hypothetical protein | 752 | 753 ctx | neighborhood:746 |
Rv1330c pncB1 |
nicotinic acid phosphoribosyltransferase PncB1 | 748 | 748 ctx | neighborhood:747 |
Rv1340 rphA |
ribonuclease PH | 736 | 736 ctx | neighborhood:714 |
Rv1488 hyp |
hypothetical protein | 704 | 678 | database:619 |
Rv3090 hyp |
hypothetical protein | 697 | 670 | database:619 |
Rv1341 rdgB |
non-canonical purine NTP pyrophosphatase | 662 | 663 ctx | neighborhood:653 |
Rv1224 tatB |
Sec-independent protein translocase protein TatB | 680 | 652 | experimental:467 |
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: integral membrane protein
- MTBC0 PGAP product: rhomboid family intramembrane serine protease
- Pfam (hmmscan --cut_ga): Rhomboid PF01694.29 (E=5e-26)
- (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_215853.1)
- Domains: Pfam-A via hmmscan --cut_ga — Rhomboid (PF01694.29)
- 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
COG0705 - Curated reference: UniProt P9WM21 (SwissProt, reviewed; Predicted)
- 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 —
46 functional partner(s); context anchor
murI - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001434|Rv1337| MGMTPRRKRRGGAVQITRPTGRPRTPTTQTTKRPRWVVGGTTILTFVALLYLVELIDQLSGSRLDVNGIRPLKTDGLWGVIFAPLLHANWHHLMANTIPLLVLGFLMTLAGLSRFVWATAIIWILGGLGTWLIGNVGSSCGPTDHIGASGLIFGWLAFLLVFGLFVRKGWDIVIGLVVLFVYGGILLGAMPVLGQCGGVSWQGHLSGAVAGVVAAYLLSAPERKARALKRAGARSGHPKL