metA Resolved · high auto-curated
H37Rv Rv3341 · MTBC0 mtbc0_003553 ·
379 aa · 3753474–3754613 (+) ·
RefSeq NP_217858.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | homoserine O-acetyltransferase |
|---|---|
| MTBC0 PGAP re-annotation | homoserine O-acetyltransferase |
| Revised (this work) | Homoserine O-acetyltransferase. Pfam: Abhydrolase_1 (PF00561.27). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WJY9
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Homoserine O-acetyltransferase |
| EC (curated) |
EC 2.3.1.31
|
| Curated function | Transfers an acetyl group from acetyl-CoA to L-homoserine, forming acetyl-L-homoserine. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
E Amino acid transport and metabolism
|
|---|---|
| Preferred name | metXA |
| eggNOG description | Transfers an acetyl group from acetyl-CoA to L- homoserine, forming acetyl-L-homoserine |
| Orthologous group | COG2021 |
| EC number |
EC 2.3.1.31
|
| KEGG orthology |
K00641
|
| KEGG pathways |
map00270, map01100, map01130
|
| Gene Ontology (49) |
GO:0000096, GO:0000097, GO:0003674, GO:0003824, GO:0004414, GO:0005575, GO:0005623, GO:0005886, GO:0006082, GO:0006520, GO:0006555, GO:0006790 +37 more
|
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 | 0.548 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 synonymous, 3 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 |
|---|---|---|---|---|
Abhydrolase_1 | PF00561.27 | 4.6e-19 | 52–356 | alpha/beta hydrolase fold |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: metC (O-acetylhomoserine sulfhydrylase), high confidence from genomic context alone (score 999 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3340 metC |
O-acetylhomoserine sulfhydrylase | 999 | 999 ctx | neighborhood:872 cooccurence:499 coexpression:817 database:900 textmining:648 |
Rv3342 |
methyltransferase | 984 | 984 ctx | neighborhood:881 coexpression:868 |
Rv1294 thrA |
homoserine dehydrogenase | 951 | 944 | database:900 |
Rv0391 metZ |
O-succinylhomoserine sulfhydrylase | 957 | 931 | database:900 textmining:409 |
Rv1079 metB |
cystathionine gamma-synthase | 952 | 922 | database:900 textmining:419 |
Rv1559 ilvA |
threonine dehydratase IlvA | 845 | 829 | database:800 |
Rv1077 cbs |
cystathionine beta-synthase | 836 | 811 | database:800 |
Rv1093 glyA1 |
serine hydroxymethyltransferase | 824 | 803 | database:800 |
Rv3042c serB2 |
phosphoserine phosphatase SerB | 811 | 803 | database:800 |
Rv0070c glyA2 |
serine hydroxymethyltransferase | 823 | 801 | database:800 |
Rv1612 trpB |
tryptophan synthase subunit beta | 810 | 801 | database:800 |
Rv1613 trpA |
tryptophan synthase subunit alpha | 801 | 801 | database:800 |
Rv0069c sdaA |
L-serine dehydratase | 800 | 801 | database:800 |
Rv0436c pssA |
CDP-diacylglycerol--serine O-phosphatidyltransferase | 800 | 800 | database:800 |
Rv2124c metH |
methionine synthase | 818 | 651 | coexpression:456 textmining:501 |
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: homoserine O-acetyltransferase
- MTBC0 PGAP product: homoserine O-acetyltransferase
- Pfam (hmmscan --cut_ga): Abhydrolase_1 PF00561.27 (E=5e-19)
- (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_217858.1)
- Domains: Pfam-A via hmmscan --cut_ga — Abhydrolase_1 (PF00561.27)
- 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
COG2021 - Curated reference: UniProt P9WJY9 (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 —
34 functional partner(s); context anchor
metC - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_003553|Rv3341|metA MTISDVPTQTLPAEGEIGLIDVGSLQLESGAVIDDVCIAVQRWGKLSPARDNVVVVLHALTGDSHITGPAGPGHPTPGWWDGVAGPGAPIDTTRWCAVATNVLGGCRGSTGPSSLARDGKPWGSRFPLISIRDQVQADVAALAALGITEVAAVVGGSMGGARALEWVVGYPDRVRAGLLLAVGARATADQIGTQTTQIAAIKADPDWQSGDYHETGRAPDAGLRLARRFAHLTYRGEIELDTRFANHNQGNEDPTAGGRYAVQSYLEHQGDKLLSRFDAGSYVILTEALNSHDVGRGRGGVSAALRACPVPVVVGGITSDRLYPLRLQQELADLLPGCAGLRVVESVYGHDGFLVETEAVGELIRQTLGLADREGACRR