Rv1352 Family assigned · medium auto-curated
H37Rv Rv1352 · MTBC0 mtbc0_001452 ·
123 aa · 1529465–1529836 (+) ·
RefSeq NP_215868.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | hypothetical protein |
| Revised (this work) | Contains Rv1352 (PF27111.1) domain(s); putative function inferred from the domain architecture. |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WM15
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized protein Rv1352 |
UniProt still lists this protein as Uncharacterized protein Rv1352; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| Orthologous group | 2AV6T |
|---|---|
| Gene Ontology (2) |
GO:0005575, GO:0005576
|
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 |
|---|---|---|---|---|
Rv1352 | PF27111.1 | 3.7e-27 | 35–120 | Rv1352-like extracellular domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: fabG2 (3-oxoacyl-ACP reductase FabG), medium confidence from genomic context alone (score 461 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) |
|---|---|---|---|---|
Rv1351 hyp |
hypothetical protein | 922 | 462 ctx | neighborhood:459 textmining:861 |
Rv1350 fabG2 |
3-oxoacyl-ACP reductase FabG | 461 | 461 ctx | neighborhood:461 |
Rv1810 hyp |
hypothetical protein | 808 | 63 | textmining:804 |
Rv2290 lppO |
lipoprotein LppO | 634 | 55 | textmining:629 |
Rv1789 PPE26 |
PPE family protein PPE26 | 443 | 52 | textmining:437 |
Rv0431 |
tuberculin-like peptide | 657 | 50 | textmining:654 |
Rv3705c hyp |
hypothetical protein | 808 | 47 | textmining:807 |
Rv1341 rdgB |
non-canonical purine NTP pyrophosphatase | 632 | 47 | textmining:630 |
Rv1968 mce3C |
Mce family protein Mce3C | 550 | 47 | textmining:548 |
Rv1970 lprM |
Mce family lipoprotein LprM | 519 | 47 | textmining:516 |
Rv1808 PPE32 |
PPE family protein PPE32 | 513 | 47 | textmining:510 |
Rv1594 nadA |
quinolinate synthetase A | 426 | 47 | textmining:423 |
Rv1800 PPE28 |
PPE family protein PPE28 | 413 | 47 | textmining:410 |
Rv1151c cobB |
NAD-dependent protein deacylase | 435 | 46 | textmining:433 |
Rv1862 adhA |
alcohol dehydrogenase A | 657 | 45 | textmining:656 |
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: hypothetical protein
- Pfam (hmmscan --cut_ga): Rv1352 PF27111.1 (E=4e-27)
- (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_215868.1)
- Domains: Pfam-A via hmmscan --cut_ga — Rv1352 (PF27111.1)
- 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
2AV6T - Curated reference: UniProt P9WM15 (SwissProt, reviewed; 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 —
32 functional partner(s); context anchor
fabG2 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001452|Rv1352| MARTLALRASAGLVAGMAMAAITLAPGARAETGEQFPGDGVFLVGTDIAPGTYRTEGPSNPLILVFGRVSELSTCSWSTHSAPEVSNENIVDTNTSMGPMSVVIPPTVAAFQTHNCKLWMRIS