Rv0885 Resolved · high auto-curated
H37Rv Rv0885 · MTBC0 mtbc0_000940 ·
340 aa · 985976–986998 (+) ·
RefSeq NP_215400.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | diiron oxygenase |
| Revised (this work) | Diiron oxygenase. Pfam: AurF (PF11583.15). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WKQ5
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized protein Rv0885 |
UniProt still lists this protein as Uncharacterized protein Rv0885; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | P-aminobenzoate N-oxygenase AurF |
| Orthologous group | COG3396 |
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 | 0.92 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 synonymous, 3 missense, 0 nonsense, 1 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.44% of strains (638) · clonal |
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 |
|---|---|---|---|---|
AurF | PF11583.15 | 2.1e-112 | 20–303 | P-aminobenzoate N-oxygenase AurF |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: fprB (ferredoxin/ferredoxin--NADP reductase), high confidence from genomic context alone (score 978 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) |
|---|---|---|---|---|
Rv0886 fprB |
ferredoxin/ferredoxin--NADP reductase | 983 | 978 ctx | neighborhood:857 coexpression:798 |
Rv0884c serC |
phosphoserine aminotransferase | 951 | 758 ctx | neighborhood:756 textmining:807 |
Rv3338 |
Rv3338, (MTV016.38), len: 214 aa. Hypothetical protein, equivalent to C-termini of Q49926|ML0685 TPEA (putative hydrolase) from Mycobacteriu | 744 | 744 | coexpression:744 |
Rv3249c |
TetR family transcriptional regulator | 715 | 715 ctx | cooccurence:713 |
Rv0883c sepH hyp |
hypothetical protein | 678 | 678 ctx | neighborhood:677 |
Rv0464c hyp |
hypothetical protein | 657 | 657 ctx | cooccurence:656 |
Rv0226c |
transmembrane protein | 621 | 621 ctx | cooccurence:621 |
Rv0185 hyp |
hypothetical protein | 570 | 571 ctx | cooccurence:568 |
Rv3230c |
stearoyl-CoA 9-desaturase electron transfer protein | 653 | 547 | |
Rv3571 kshB |
3-ketosteroid-9-alpha-hydroxylase reductase subunit | 649 | 542 | |
Rv2776c |
oxidoreductase | 648 | 540 | |
Rv3554 fdxB |
electron transfer protein FdxB | 648 | 540 | |
Rv0184 hyp |
hypothetical protein | 527 | 528 ctx | cooccurence:524 |
Rv2524c fas |
fatty acid synthase | 545 | 521 | |
Rv1466 hyp |
hypothetical protein | 598 | 477 | coexpression:434 |
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: diiron oxygenase
- Pfam (hmmscan --cut_ga): AurF PF11583.15 (E=2e-112)
- (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_215400.1)
- Domains: Pfam-A via hmmscan --cut_ga — AurF (PF11583.15)
- 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
COG3396 - Curated reference: UniProt P9WKQ5 (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 —
52 functional partner(s); context anchor
fprB - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000940|Rv0885| MDRTRIVRRWRRNMDVADDAEYVEMLATLSEGSVRRNFNPYTDIDWESPEFAVTDNDPRWILPATDPLGRHPWYQAQSRERQIEIGMWRQANVAKVGLHFESILIRGLMNYTFWMPNGSPEYRYCLHESVEECNHTMMFQEMVNRVGADVPGLPRRLRWVSPLVPLVAGPLPVAFFIGVLAGEEPIDHTQKNVLREGKSLHPIMERVMSIHVAEEARHISFAHEYLRKRLPRLTRMQRFWISLYFPLTMRSLCNAIVVPPKAFWEEFDIPREVKKELFFGSPESRKWLCDMFADARMLAHDTGLMNPIARLVWRLCKIDGKPSRYRSEPQRQHLAAAPAA