Rv3049c Resolved · high auto-curated
H37Rv Rv3049c · MTBC0 mtbc0_003241 ·
524 aa · 3430819–3432393 (-) ·
RefSeq NP_217565.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | monooxygenase |
|---|---|
| MTBC0 PGAP re-annotation | NAD(P)/FAD-dependent oxidoreductase |
| Revised (this work) | NAD(P)/FAD-dependent oxidoreductase. Pfam: FMO-like (PF00743.26), Pyr_redox_3 (PF13738.13), NAD_binding_8 (PF13450.13), Lys_Orn_oxgnase (PF13434.13). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
I6Y2E2
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Baeyer-Villiger monooxygenase |
| Curated function | Catalyzes a Baeyer-Villiger oxidation reaction, i.e. the insertion of an oxygen atom into a carbon-carbon bond adjacent to a carbonyl, which converts ketones to esters or lactones using NADPH and/or NADH as an electron donor. Thus, can convert bicyclo[3.2.0]hept-2-en-6-one into the oxidative lactone products 2-oxabicyclo[3.3.0]oct-6-en-3-one and 3-oxabicyclo[3.3.0]oct-6-en-2-one. Is also able to catalyze the sulfoxidation of methyl phenyl sulfide (thioanisole). |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
P Inorganic ion transport and metabolism
|
|---|---|
| eggNOG description | Flavoprotein involved in K transport |
| Orthologous group | COG2072 |
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 | 0.403 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 4 synonymous, 5 missense, 0 nonsense, 1 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.15% of strains (219) · 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 |
|---|---|---|---|---|
FMO-like | PF00743.26 | 3.7e-15 | 24–229 | Flavin-binding monooxygenase-like |
Pyr_redox_3 | PF13738.13 | 1.7e-14 | 26–228 | Pyridine nucleotide-disulphide oxidoreductase |
NAD_binding_8 | PF13450.13 | 7.3e-14 | 27–94 | NAD(P)-binding Rossmann-like domain |
Lys_Orn_oxgnase | PF13434.13 | 1.7e-04 | 111–215 | L-lysine 6-monooxygenase/L-ornithine 5-monooxygenase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv3050c (AsnC family transcriptional regulator), high confidence from genomic context alone (score 761 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3050c |
AsnC family transcriptional regulator | 760 | 761 ctx | neighborhood:757 |
Rv3048c nrdF2 |
ribonucleoside-diphosphate reductase subunit beta NrdF2 | 722 | 723 ctx | neighborhood:719 |
Rv3052c nrdI |
NrdI protein | 621 | 621 ctx | neighborhood:619 |
Rv1245c |
short-chain type dehydrogenase/reductase | 503 | 504 ctx | cooccurence:445 |
Rv3085 sadH |
oxidoreductase SadH | 459 | 459 ctx | cooccurence:400 |
Rv3741c |
oxidoreductase | 449 | 449 ctx | cooccurence:441 |
Rv0860 fadB |
fatty oxidation protein FadB | 567 | 444 | |
Rv3742c |
oxidoreductase | 441 | 441 ctx | cooccurence:434 |
Rv1308 atpA |
ATP synthase subunit alpha | 437 | 437 | experimental:427 |
Rv1507c hyp |
hypothetical protein | 414 | 415 | |
Rv3097c lipY |
triacylglycerol lipase Lip | 416 | 413 | |
Rv1834 lipZ |
hydrolase | 413 | 413 | |
Rv3456c rplQ |
50S ribosomal protein L17 | 412 | 413 | |
Rv1309 atpG |
ATP synthase subunit gamma | 412 | 413 | |
Rv1310 atpD |
ATP synthase subunit beta | 407 | 407 |
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: monooxygenase
- MTBC0 PGAP product: NAD(P)/FAD-dependent oxidoreductase
- Pfam (hmmscan --cut_ga): FMO-like PF00743.26 (E=4e-15), Pyr_redox_3 PF13738.13 (E=2e-14), NAD_binding_8 PF13450.13 (E=7e-14), Lys_Orn_oxgnase PF13434.13 (E=2e-04)
- (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_217565.1)
- Domains: Pfam-A via hmmscan --cut_ga — FMO-like (PF00743.26), Pyr_redox_3 (PF13738.13), NAD_binding_8 (PF13450.13), Lys_Orn_oxgnase (PF13434.13)
- 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
COG2072 - Curated reference: UniProt I6Y2E2 (TrEMBL, unreviewed; 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 —
27 functional partner(s); context anchor
Rv3050c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_003241|Rv3049c| MSIADTAAKPSTPSPANQPPVRTRAVIIGTGFSGLGMAIALQKQGVDFVILEKADDVGGTWRDNTYPGCACDIPSHLYSFSFEPKADWKHLFSYWDEILGYLKGVTDKYGLRRYIEFNSLVDRGYWDDDECRWHVFTADGREYVAQFLISGAGALHIPSFPEIAGRDEFAGPAFHSAQWDHSIDLTGKRVAIVGTGASAIQIVPEIVGQVAELQLYQRTPPWVVPRTNEELPVSLRRALRTVPGLRALLRLGIYWAQEALAYGMTKRPNTLKIIEAYAKYNIRRSVKDRELRRKLTPRYRIGCKRILNSSTYYPAVADPKTELITDRIDRITHDGIVTADGTGREVFREADVIVYATGFHVTDSYTYVQIKGRHGEDLVDRWNREGIGAHRGITVANMPNLFFLLGPNTGLGHNSVVFMIESQIHYVADAIAKCDRMGVQALAPTREAQDRFNQELQRRLAGSVWNSGGCRSWYLDEHGKNTVLWCGYTWQYWLTTRSVNPAEYRFFGIGNGLSSDRATVAAAN