meaB Resolved · high auto-curated
H37Rv Rv1496 · MTBC0 mtbc0_001600 ·
334 aa · 1696689–1697693 (+) ·
RefSeq NP_216012.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | transport system kinase |
|---|---|
| MTBC0 PGAP re-annotation | methylmalonyl Co-A mutase-associated GTPase MeaB |
| Revised (this work) | Methylmalonyl Co-A mutase-associated GTPase MeaB. Pfam: MeaB (PF03308.23), cobW (PF02492.26). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WPZ1
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable GTPase Rv1496 |
| EC (curated) |
EC 3.6.-.-
|
| Curated function | Probable GTPase. May also bind and hydrolyze ATP. May function as chaperone (Probable). |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
E Amino acid transport and metabolism
|
|---|---|
| Preferred name | argK |
| eggNOG description | LAO AO transport system ATPase |
| Orthologous group | COG1703 |
| KEGG orthology |
K07588
|
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 | 0.249 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 2 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 |
|---|---|---|---|---|
MeaB | PF03308.23 | 1.0e-130 | 26–298 | Methylmalonyl Co-A mutase-associated GTPase MeaB |
cobW | PF02492.26 | 7.2e-06 | 61–214 | CobW/HypB/UreG, nucleotide-binding domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: mutB (methylmalonyl-CoA mutase large subunit), high confidence from genomic context alone (score 994 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1493 mutB |
methylmalonyl-CoA mutase large subunit | 996 | 994 ctx | neighborhood:789 cooccurence:774 coexpression:857 textmining:432 |
Rv1492 mutA |
methylmalonyl-CoA mutase small subunit | 982 | 981 ctx | neighborhood:867 cooccurence:774 coexpression:404 |
Rv1322A hyp |
hypothetical protein | 905 | 899 ctx | fusion:588 cooccurence:743 |
Rv1494 mazE4 |
antitoxin MazE4 | 803 | 802 ctx | neighborhood:801 |
Rv1495 mazF4 |
mRNA interferase MazF4 | 803 | 802 ctx | neighborhood:801 |
Rv1491c |
TVP38/TMEM64 family membrane protein | 754 | 754 ctx | neighborhood:753 |
Rv1489A hyp |
hypothetical protein | 751 | 727 | coexpression:690 |
Rv1497 lipL |
esterase LipL | 657 | 658 ctx | neighborhood:654 |
Rv1864c hyp |
hypothetical protein | 424 | 424 | coexpression:405 |
Rv3280 accD5 |
propionyl-CoA carboxylase subunit beta | 403 | 380 | |
Rv1672c |
integral membrane transport protein | 479 | 41 | textmining:479 |
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: transport system kinase
- MTBC0 PGAP product: methylmalonyl Co-A mutase-associated GTPase MeaB
- Pfam (hmmscan --cut_ga): MeaB PF03308.23 (E=1e-130), cobW PF02492.26 (E=7e-06)
- (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_216012.1)
- Domains: Pfam-A via hmmscan --cut_ga — MeaB (PF03308.23), cobW (PF02492.26)
- 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
COG1703 - Curated reference: UniProt P9WPZ1 (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 —
11 functional partner(s); context anchor
mutB - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001600|Rv1496|meaB MMAASHDDDTVDGLATAVRGGDRAALPRAITLVESTRPDHREQAQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVLAVDPSSTRTGGSILGDKTRMARLAVHPNAYIRPSPTSGTLGGVTRATRETVVLLEAAGFDVILIETVGVGQSEVAVANMVDTFVLLTLARTGDQLQGIKKGVLELADIVVVNKADGEHHKEARLAARELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQVLTGAGEFDARRRDQQVDWTWQLVRDAVLDRVWSNPTVRKVRSELERRVRAGELTPALAAQQILEIANLTDR