Rv0945 Resolved · high auto-curated
H37Rv Rv0945 · MTBC0 - ·
253 aa · 1054247–1055008 (+) ·
RefSeq NP_215460.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | oxidoreductase |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Oxidoreductase. Pfam: SDR (PF23441.1), adh_short (PF00106.32), KR (PF08659.17), Epimerase (PF01370.28), adh_short_C2 (PF13561.13). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Annotated on the H37Rv protein: this gene has no 1:1 ancestral MTBC0 anchor (PE/PPE, paralogue, IS element, or otherwise unanchored CDS).
Curated reference (UniProt)
| UniProt |
P9WGR7
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized oxidoreductase Rv0945 |
| EC (curated) |
EC 1.-.-.-
|
UniProt still lists this protein as Uncharacterized oxidoreductase Rv0945; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | Belongs to the short-chain dehydrogenases reductases (SDR) family |
| Orthologous group | COG4221 |
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 | 0.451 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 4 synonymous, 5 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 |
|---|---|---|---|---|
SDR | PF23441.1 | 1.4e-08 | 8–210 | SDR-like rossmann domain |
adh_short | PF00106.32 | 2.0e-43 | 9–202 | short chain dehydrogenase |
KR | PF08659.17 | 8.9e-12 | 10–173 | KR domain |
Epimerase | PF01370.28 | 5.1e-05 | 10–192 | NAD dependent epimerase/dehydratase family |
adh_short_C2 | PF13561.13 | 2.0e-29 | 14–202 | Enoyl-(Acyl carrier protein) reductase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: fpg2 (formamidopyrimidine-DNA glycosylase), high confidence from genomic context alone (score 883 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0944 fpg2 |
formamidopyrimidine-DNA glycosylase | 976 | 883 ctx | neighborhood:881 textmining:808 |
Rv3485c |
short-chain type dehydrogenase/reductase | 677 | 666 ctx | cooccurence:618 |
Rv0943c |
monooxygenase | 914 | 637 ctx | neighborhood:590 textmining:774 |
Rv3530c |
oxidoreductase | 635 | 621 ctx | cooccurence:570 |
Rv0769 |
oxidoreductase | 628 | 614 ctx | cooccurence:562 |
Rv1714 |
oxidoreductase | 617 | 608 ctx | cooccurence:549 |
Rv0927c |
oxidoreductase | 672 | 593 ctx | cooccurence:536 |
Rv2766c |
short-chain type dehydrogenase/reductase | 594 | 579 ctx | cooccurence:520 |
Rv1903 |
membrane protein | 546 | 547 ctx | neighborhood:544 |
Rv3391 acrA1 |
acyl-CoA-reductase AcrA | 562 | 544 ctx | cooccurence:539 |
Rv0825c hyp |
hypothetical protein | 475 | 475 ctx | cooccurence:474 |
Rv3734c tgs2 |
diacyglycerol O-acyltransferase | 470 | 470 ctx | cooccurence:455 |
Rv3740c |
diacyglycerol O-acyltransferase | 468 | 468 ctx | cooccurence:455 |
Rv3480c |
diacyglycerol O-acyltransferase | 456 | 457 ctx | cooccurence:427 |
Rv3502c |
3-oxoacyl-ACP reductase | 475 | 456 |
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
- Annotation from H37Rv (no MTBC0 1:1 anchor; H37Rv protein used): oxidoreductase
- Pfam (hmmscan --cut_ga): SDR PF23441.1 (E=1e-08), adh_short PF00106.32 (E=2e-43), KR PF08659.17 (E=9e-12), Epimerase PF01370.28 (E=5e-05), adh_short_C2 PF13561.13 (E=2e-29)
- (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_215460.1)
- Domains: Pfam-A via hmmscan --cut_ga — SDR (PF23441.1), adh_short (PF00106.32), KR (PF08659.17), Epimerase (PF01370.28), adh_short_C2 (PF13561.13)
- 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
COG4221 - Curated reference: UniProt P9WGR7 (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 —
28 functional partner(s); context anchor
fpg2 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv0945| MLTGVTRQKILITGASSGLGAGMARSFAAQGRDLALCARRTDRLTELKAELSQRYPDIKIAVAELDVNDHERVPKVFAELSDEIGGIDRVIVNAGIGKGARLGSGKLWANKATIETNLVAALVQIETALDMFNQRGSGHLVLISSVLGVKGVPGVKAAYAASKAGVRSLGESLRAEYAQRPIRVTVLEPGYIESEMTAKSASTMLMVDNATGVKALVAAIEREPGRAAVPWWPWAPLVRLMWVLPPRLTRRFA