Rv2971 Resolved · high auto-curated
H37Rv Rv2971 · MTBC0 mtbc0_003156 ·
282 aa · 3347276–3348124 (+) ·
RefSeq NP_217487.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | oxidoreductase |
|---|---|
| MTBC0 PGAP re-annotation | aldo/keto reductase |
| Revised (this work) | Aldo/keto reductase. Pfam: Aldo_ket_red (PF00248.28). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WQA5
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Aldo-keto reductase Rv2971 |
| EC (curated) |
EC 1.1.1.-
|
| Curated function | Catalyzes the NADPH-dependent reduction of dicarbonyls. Exhibits narrow substrate specificity, with preferential activity against the dicarbonyl substrates methylglyoxal and phenylglyoxal. May play an important role in the detoxification of methylglyoxal. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| Preferred name | dkgA |
| eggNOG description | aldo keto reductase |
| Orthologous group | COG0656 |
| EC number |
EC 1.1.1.346
|
| KEGG orthology |
K06221
|
| Gene Ontology (10) |
GO:0005575, GO:0005618, GO:0005623, GO:0005886, GO:0008150, GO:0016020, GO:0030312, GO:0040007, GO:0044464, GO:0071944
|
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 | 1.024 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 synonymous, 3 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 |
|---|---|---|---|---|
Aldo_ket_red | PF00248.28 | 1.1e-44 | 29–265 | Aldo/keto reductase family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: lipN (lipase/esterase LipN), high confidence from genomic context alone (score 729 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2970A hyp |
hypothetical protein | 889 | 889 ctx | neighborhood:881 |
Rv3280 accD5 |
propionyl-CoA carboxylase subunit beta | 750 | 741 | coexpression:741 |
Rv2970c lipN |
lipase/esterase LipN | 734 | 729 ctx | neighborhood:713 |
Rv2124c metH |
methionine synthase | 745 | 713 | database:630 |
Rv2969c hyp |
hypothetical protein | 704 | 705 ctx | neighborhood:525 coexpression:404 |
Rv2298 |
oxidoreductase | 652 | 606 | coexpression:419 |
Rv2968c |
integral membrane protein | 528 | 528 ctx | neighborhood:521 |
Rv2006 otsB1 |
trehalose-6-phosphate phosphatase OtsB | 534 | 508 | coexpression:505 |
Rv0432 sodC |
superoxide dismutase | 534 | 505 | coexpression:449 |
Rv2940c mas |
multifunctional mycocerosic acid synthase | 625 | 502 | coexpression:418 |
Rv2933 ppsC |
phthiocerol synthesis polyketide synthase type I PpsC | 684 | 494 | coexpression:408 textmining:402 |
Rv3825c pks2 |
phthioceranic/hydroxyphthioceranic acid synthase | 618 | 494 | coexpression:408 |
Rv2048c pks12 |
polyketide synthase | 618 | 494 | coexpression:408 |
Rv1527c pks5 |
polyketide synthase | 618 | 493 | coexpression:407 |
Rv3372 otsB2 |
trehalose 6-phosphate phosphatase | 514 | 486 | coexpression:486 |
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: oxidoreductase
- MTBC0 PGAP product: aldo/keto reductase
- Pfam (hmmscan --cut_ga): Aldo_ket_red PF00248.28 (E=1e-44)
- (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_217487.1)
- Domains: Pfam-A via hmmscan --cut_ga — Aldo_ket_red (PF00248.28)
- 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
COG0656 - Curated reference: UniProt P9WQA5 (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 —
43 functional partner(s); context anchor
lipN - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_003156|Rv2971| MTGESGAAAAPSITLNDEHTMPVLGLGVAELSDDETERAVSAALEIGCRLIDTAYAYGNEAAVGRAIAASGVAREELFVTTKLATPDQGFTRSQEACRASLDRLGLDYVDLYLIHWPAPPVGKYVDAWGGMIQSRGEGHARSIGVSNFTAEHIENLIDLTFVTPAVNQIELHPLLNQDELRKANAQHTVVTQSYCPLALGRLLDNPTVTSIASEYVKTPAQVLLRWNLQLGNAVVVRSARPERIASNFDVFDFELAAEHMDALGGLNDGTRVREDPLTYAGT