Rv1714 Family assigned · medium auto-curated
H37Rv Rv1714 · MTBC0 mtbc0_001824 ·
270 aa · 1953868–1954680 (+) ·
RefSeq NP_216230.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | oxidoreductase |
|---|---|
| MTBC0 PGAP re-annotation | SDR family oxidoreductase |
| Revised (this work) | SDR family oxidoreductase. Pfam: adh_short (PF00106.32), KR (PF08659.17), 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.
Curated reference (UniProt)
| UniProt |
P9WGQ3
SwissProt · reviewed
· Inferred from homology
|
|---|---|
| UniProt name | Uncharacterized oxidoreductase Rv1714 |
| EC (curated) |
EC 1.-.-.-
|
UniProt still lists this protein as Uncharacterized oxidoreductase Rv1714; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
I Lipid transport and metabolismQ Secondary metabolites biosynthesis, transport and catabolism
|
|---|---|
| eggNOG description | KR domain |
| Orthologous group | COG1028 |
| EC number |
EC 1.1.1.100
|
| KEGG orthology |
K00059
|
| KEGG pathways |
map00061, map00333, map00780, map01040, map01100, map01130, map01212
|
| KEGG modules |
M00083, M00572
|
| Gene Ontology (10) |
GO:0005575, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0008150, GO:0040007, GO:0044424, GO:0044444, GO:0044464
|
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 | 0.607 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 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 |
|---|---|---|---|---|
adh_short | PF00106.32 | 2.5e-35 | 23–210 | short chain dehydrogenase |
KR | PF08659.17 | 2.3e-14 | 25–186 | KR domain |
adh_short_C2 | PF13561.13 | 4.8e-48 | 29–268 | Enoyl-(Acyl carrier protein) reductase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: fadB3 (3-hydroxybutyryl-CoA dehydrogenase FadB), high confidence from genomic context alone (score 987 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1715 fadB3 |
3-hydroxybutyryl-CoA dehydrogenase FadB | 987 | 987 ctx | neighborhood:882 coexpression:862 |
Rv1716 hyp |
hypothetical protein | 997 | 984 ctx | neighborhood:881 coexpression:828 textmining:870 |
Rv1717 hyp |
hypothetical protein | 976 | 976 ctx | neighborhood:881 coexpression:767 |
Rv1718 hyp |
hypothetical protein | 966 | 966 ctx | neighborhood:808 coexpression:831 |
Rv3728 |
membrane protein | 900 | 895 | coexpression:796 database:431 |
Rv1719 |
transcriptional regulator | 884 | 884 ctx | neighborhood:798 |
Rv2524c fas |
fatty acid synthase | 827 | 802 | coexpression:509 experimental:475 |
Rv0541c |
integral membrane protein | 759 | 759 | coexpression:759 |
Rv1865c |
short-chain type dehydrogenase | 738 | 731 ctx | cooccurence:695 |
Rv1882c |
short-chain type dehydrogenase/reductase | 698 | 699 ctx | cooccurence:688 |
Rv0765c |
oxidoreductase | 666 | 666 ctx | cooccurence:657 |
Rv1713 engA |
GTPase Der | 678 | 665 ctx | neighborhood:520 |
Rv3085 sadH |
oxidoreductase SadH | 644 | 645 ctx | cooccurence:632 |
Rv1245c |
short-chain type dehydrogenase/reductase | 642 | 642 ctx | cooccurence:629 |
Rv1937 |
oxygenase | 675 | 637 |
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: SDR family oxidoreductase
- Pfam (hmmscan --cut_ga): adh_short PF00106.32 (E=2e-35), KR PF08659.17 (E=2e-14), adh_short_C2 PF13561.13 (E=5e-48)
- (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_216230.1)
- Domains: Pfam-A via hmmscan --cut_ga — adh_short (PF00106.32), KR (PF08659.17), 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
COG1028 - Curated reference: UniProt P9WGQ3 (SwissProt, reviewed; Inferred from homology)
- 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 —
95 functional partner(s); context anchor
fadB3 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001824|Rv1714| MEEMALAQQVPNLGLARFSVQDKSILITGATGSLGRVAARALADAGARLTLAGGNSAGLAELVNGAGIDDAAVVTCRPDSLADAQQMVEAALGRYGRLDGVLVASGSNHVAPITEMAVEDFDAVMDANVRGAWLVCRAAGRVLLEQGQGGSVVLVSSVRGGLGNAAGYSAYCPSKAGTDLLAKTLAAEWGGHGIRVNALAPTVFRSAVTEWMFTDDPKGRATREAMLARIPLRRFAEPEDFVGALIYLLSDASSFYTGQVMYLDGGYTAC