aofH Family assigned · medium auto-curated
H37Rv Rv3170 · MTBC0 mtbc0_003369 ·
448 aa · 3563353–3564699 (+) ·
RefSeq NP_217686.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | flavin-containing monoamine oxidase |
|---|---|
| MTBC0 PGAP re-annotation | flavin monoamine oxidase family protein |
| Revised (this work) | Flavin monoamine oxidase family protein. Pfam: DAO (PF01266.31), Pyr_redox_2 (PF07992.21), FAD_binding_2 (PF00890.31), FAD_oxidored (PF12831.14), NAD_binding_8 (PF13450.13), Amino_oxidase (PF01593.31). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WQ15
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Putative flavin-containing monoamine oxidase AofH |
| EC (curated) |
EC 1.4.3.-
|
UniProt still lists this protein as Putative flavin-containing monoamine oxidase AofH; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
E Amino acid transport and metabolism
|
|---|---|
| Preferred name | aofH |
| eggNOG description | (mono)amine oxidase |
| Orthologous group | COG1231 |
| EC number |
EC 1.4.3.4
|
| KEGG orthology |
K00274
|
| KEGG pathways |
map00260, map00330, map00340, map00350, map00360, map00380, map00950, map00982, map01100, map01110, map04726, map04728, map05030, map05031, map05034
|
| KEGG modules |
M00135
|
| Gene Ontology (11) |
GO:0005575, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0005886, GO:0016020, GO:0044424, GO:0044444, 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) pseudogene candidate
| pN/pS | 0.476 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 4 missense, 0 nonsense, 3 frameshift |
| Disruption | 3 distinct premature-stop/frameshift site(s); most common in 17.45% of strains (25335) · 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 |
|---|---|---|---|---|
DAO | PF01266.31 | 2.0e-12 | 9–383 | FAD dependent oxidoreductase |
Pyr_redox_2 | PF07992.21 | 1.2e-06 | 9–45 | Pyridine nucleotide-disulphide oxidoreductase |
FAD_binding_2 | PF00890.31 | 4.1e-07 | 9–46 | FAD binding domain |
FAD_oxidored | PF12831.14 | 3.2e-06 | 9–49 | FAD dependent oxidoreductase |
NAD_binding_8 | PF13450.13 | 2.3e-14 | 12–76 | NAD(P)-binding Rossmann-like domain |
Amino_oxidase | PF01593.31 | 1.3e-83 | 17–444 | Flavin containing amine oxidoreductase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv3168 (aminoglycoside phosphotransferase), medium confidence from genomic context alone (score 628 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1703c |
methyltransferase | 939 | 936 | database:900 |
Rv2101 helZ |
helicase HelZ | 918 | 910 | experimental:442 database:844 |
Rv1530 adh |
alcohol dehydrogenase | 913 | 908 | database:900 |
Rv3293 pcd |
piperideine-6-carboxylic acid dehydrogenase | 911 | 906 | database:900 |
Rv1862 adhA |
alcohol dehydrogenase A | 904 | 905 | database:900 |
Rv0223c |
aldehyde dehydrogenase | 909 | 904 | database:900 |
Rv0147 |
aldehyde dehydrogenase | 908 | 903 | database:900 |
Rv0768 aldA |
aldehyde dehydrogenase AldA | 908 | 903 | database:900 |
Rv0162c adhE1 |
zinc-type alcohol dehydrogenase subunit E | 901 | 902 | database:900 |
Rv0761c adhB |
alcohol dehydrogenase B | 901 | 901 | database:900 |
Rv3169 hyp |
hypothetical protein | 664 | 663 ctx | neighborhood:617 |
Rv3168 |
aminoglycoside phosphotransferase | 628 | 628 ctx | neighborhood:540 |
Rv1660 pks10 |
chalcone synthase | 530 | 512 | experimental:506 |
Rv1372 pks18 |
alpha-pyrone synthesis polyketide synthase-like protein | 527 | 509 | experimental:506 |
Rv0902c prrB |
two component sensor histidine kinase PrrB | 526 | 507 | coexpression:507 |
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: flavin-containing monoamine oxidase
- MTBC0 PGAP product: flavin monoamine oxidase family protein
- Pfam (hmmscan --cut_ga): DAO PF01266.31 (E=2e-12), Pyr_redox_2 PF07992.21 (E=1e-06), FAD_binding_2 PF00890.31 (E=4e-07), FAD_oxidored PF12831.14 (E=3e-06), NAD_binding_8 PF13450.13 (E=2e-14), Amino_oxidase PF01593.31 (E=1e-83)
- (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_217686.1)
- Domains: Pfam-A via hmmscan --cut_ga — DAO (PF01266.31), Pyr_redox_2 (PF07992.21), FAD_binding_2 (PF00890.31), FAD_oxidored (PF12831.14), NAD_binding_8 (PF13450.13), Amino_oxidase (PF01593.31)
- 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
COG1231 - Curated reference: UniProt P9WQ15 (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 —
47 functional partner(s); context anchor
Rv3168 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_003369|Rv3170|aofH MTNPPWTVDVVVVGAGFAGLAAARELTRQGHEVLVFEGRDRVGGRSLTGRVAGVPADMGGSFIGPTQDAVLALATELGIPTTPTHRDGRNVIQWRGSARSYRGTIPKLSLTGLIDIGRLRWQFERIARGVPVAAPWDARRARELDDVSLGEWLRLVRATSSSRNLMAIMTRVTWGCEPDDVSMLHAARYVRAAGGLDRLLDVKNGAQQDRVPGGTQQIAQAAAAQLGARVLLNAAVRRIDRHGAGVTVTSDQGQAEAGFVIVAIPPAHRVAIEFDPPLPPEYQQLAHHWPQGRLSKAYAAYSTPFWRASGYSGQALSDEAPVFITFDVSPHADGPGILMGFVDARGFDSLPIEERRRDALRCFASLFGDEALDPLDYVDYRWGTEEFAPGGPTAAVPPGSWTKYGHWLREPVGPIHWASTETADEWTGYFDGAVRSGQRAAAEVAALL