Rv0197 Resolved · high auto-curated
H37Rv Rv0197 · MTBC0 - ·
762 aa · 232231–234519 (+) ·
RefSeq NP_214711.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | oxidoreductase |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Oxidoreductase. Pfam: Molybdop_Fe4S4 (PF04879.22), Molybdopterin (PF00384.28), Molydop_binding (PF01568.28). |
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 |
L0T2Z1
TrEMBL · unreviewed
· Predicted
|
|---|---|
| UniProt name | Possible oxidoreductase |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
C Energy production and conversion
|
|---|---|
| eggNOG description | Belongs to the prokaryotic molybdopterin-containing oxidoreductase family |
| Orthologous group | COG0243 |
| EC number |
EC 1.17.1.9
|
| KEGG orthology |
K00122
|
| KEGG pathways |
map00630, map00680, map01100, map01120, map01200
|
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 | 0.319 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 15 synonymous, 12 missense, 2 nonsense, 3 frameshift |
| Disruption | 5 distinct premature-stop/frameshift site(s); most common in 89.10% of strains (129380) · reference-fixed |
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 |
|---|---|---|---|---|
Molybdop_Fe4S4 | PF04879.22 | 1.4e-10 | 6–58 | Molybdopterin oxidoreductase Fe4S4 domain |
Molybdopterin | PF00384.28 | 2.5e-27 | 61–436 | Molybdopterin oxidoreductase |
Molydop_binding | PF01568.28 | 1.3e-14 | 631–735 | Molydopterin dinucleotide binding domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0196 (HTH-type transcriptional regulator), high confidence from genomic context alone (score 986 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0196 |
HTH-type transcriptional regulator | 992 | 986 ctx | neighborhood:881 coexpression:860 textmining:512 |
Rv2194 qcrC |
ubiquinol-cytochrome C reductase cytochrome subunit C | 816 | 796 | experimental:774 |
Rv0685 tuf |
elongation factor Tu | 806 | 791 | experimental:783 |
Rv0231 fadE4 |
acyl-CoA dehydrogenase FadE4 | 588 | 581 ctx | cooccurence:581 |
Rv3859c gltB |
glutamate synthase large subunit | 768 | 573 | experimental:420 textmining:481 |
Rv0295c stf0 hyp |
hypothetical protein | 534 | 534 ctx | cooccurence:534 |
Rv0195 |
two component transcriptional regulator | 542 | 527 ctx | neighborhood:526 |
Rv2195 qcrA |
ubiquinol-cytochrome C reductase rieske iron-sulfur subunit | 559 | 513 | experimental:484 |
Rv3273 |
transmembrane carbonic anhydrase | 477 | 452 | |
Rv1162 narH |
nitrate reductase subunit beta | 504 | 451 | experimental:431 |
Rv0210 hyp |
hypothetical protein | 441 | 441 ctx | cooccurence:441 |
Rv2899c fdhD |
formate dehydrogenase accessory protein FdhD | 413 | 350 | |
Rv3153 nuoI |
NADH-quinone oxidoreductase subunit I | 402 | 338 | |
Rv2171 lppM |
lipoprotein LppM | 652 | 268 | textmining:545 |
Rv3111 moaC1 |
cyclic pyranopterin monophosphate synthase accessory protein | 429 | 228 |
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): Molybdop_Fe4S4 PF04879.22 (E=1e-10), Molybdopterin PF00384.28 (E=3e-27), Molydop_binding PF01568.28 (E=1e-14)
- (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_214711.1)
- Domains: Pfam-A via hmmscan --cut_ga — Molybdop_Fe4S4 (PF04879.22), Molybdopterin (PF00384.28), Molydop_binding (PF01568.28)
- 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
COG0243 - Curated reference: UniProt L0T2Z1 (TrEMBL, unreviewed; 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 —
31 functional partner(s); context anchor
Rv0196 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv0197| MTSSDWLPTACILCECNCGIVVQVDDRRLARIRGDKAHPGSAGYTCNKALRLDHYQNNRARLSSPMRRRADGTYEEIDWDTAIVEIAEGFKQIRDTHGGDKIFYYGGGGQGNHLGGAYSGAFLKALGSRYRSNALAQEKTGEAWVDFQLYGGHTRGEFENAEVSVFVGKNPWMSQSFPRARVVLNEIAKDPGRSMIVIDPVVTDTAKMADFHLRVQPGCDAWCLAALAAVLVQENLCNEAFLAAHVHGVDTVRAALQEVPVADYAQRCGVDEELLRAAARRIGTAASVSVFEDLGIQQAPNSTVCSYLNKLLWILTGNFAKKGGQHLHSSFAPLFSQVSGRTPVTGAPIIAGLIPGNVVPEEILTEHPDRFRAMIVERGNPAHSLADSAACRAAFQALELMVVVDVAMTETARLAHYVLPAASQFEKPEATFFNFEFPRNGFQLRRPLFPPLPGTLPEPEIWARLVRALGVVDEADLRPLREAAAQGRQAYTEAFLAAAATNPTVAKLTAYVLYETLGPTLPDGLAGAAALWGLAQKTAMAYPDAVRRAGHADGNALFDAILERPSGVTFTVHNYEDDFALISHPDHKIALEIPEMLAEIRSLTQTPSRLTTPQLPIVLSVGERRAYTANDIFRDPSWRKRDANGALRVSVEDAQALGLADGCLARITTAAGSAEATVEVTETMLAGHAALPNGFGLDYTGDDGRTVVAGVAPNALTSTRWRDPYAGTPWHKHVPAAIRRADAESPIWYPKWAILPARGVLA