ilvE Resolved · high auto-curated
H37Rv Rv2210c · MTBC0 mtbc0_002346 ·
368 aa · 2501021–2502127 (-) ·
RefSeq NP_216726.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | branched-chain amino acid aminotransferase |
|---|---|
| MTBC0 PGAP re-annotation | branched-chain amino acid aminotransferase |
| Revised (this work) | Branched-chain amino acid aminotransferase. Pfam: Aminotran_4 (PF01063.25). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WQ75
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Branched-chain-amino-acid aminotransferase |
| EC (curated) |
EC 2.6.1.42
|
| Curated function | Catalyzes the reversible transfers of an amino group from glutamate to the alpha-ketoacid of the respective amino acid in the final step in the biosynthesis of branchedchain amino acids. The amino acids can be ranked in the following order with respect to their efficiency as amino donor: Leu > Ile > Val. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
E Amino acid transport and metabolism
|
|---|---|
| Preferred name | ilvE |
| eggNOG description | Branched-chain amino acid aminotransferase |
| Orthologous group | COG0115 |
| EC number |
EC 2.6.1.42
|
| KEGG orthology |
K00826
|
| KEGG pathways |
map00270, map00280, map00290, map00770, map01100, map01110, map01130, map01210, map01230
|
| KEGG modules |
M00019, M00036, M00119, M00570
|
| Gene Ontology (69) |
GO:0000096, GO:0000097, GO:0003674, GO:0003824, GO:0004084, GO:0005488, GO:0006082, GO:0006464, GO:0006520, GO:0006555, GO:0006790, GO:0006807 +57 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 | 0.431 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 4 synonymous, 5 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 |
|---|---|---|---|---|
Aminotran_4 | PF01063.25 | 1.2e-27 | 76–323 | Amino-transferase class IV |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: gcvT (aminomethyltransferase), high confidence from genomic context alone (score 797 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0189c ilvD |
dihydroxy-acid dehydratase | 994 | 982 | coexpression:669 database:900 textmining:736 |
Rv3710 leuA |
2-isopropylmalate synthase | 987 | 965 | coexpression:608 database:900 textmining:662 |
Rv1079 metB |
cystathionine gamma-synthase | 972 | 917 | database:900 textmining:682 |
Rv0337c aspC |
aspartate aminotransferase | 911 | 906 | database:900 |
Rv2225 panB |
3-methyl-2-oxobutanoate hydroxymethyltransferase | 916 | 904 | database:900 |
Rv3704c gshA |
glutamate--cysteine ligase | 900 | 901 | database:900 |
Rv1559 ilvA |
threonine dehydratase IlvA | 974 | 886 | coexpression:421 database:800 textmining:784 |
Rv1294 thrA |
homoserine dehydrogenase | 926 | 884 | coexpression:412 database:800 |
Rv1296 thrB |
homoserine kinase | 866 | 827 | database:800 |
Rv2211c gcvT |
aminomethyltransferase | 820 | 797 ctx | neighborhood:792 |
Rv2212 |
adenylyl cyclase | 730 | 730 ctx | neighborhood:730 |
Rv2213 pepB |
cytosol aminopeptidase | 744 | 728 ctx | neighborhood:726 |
Rv3534c hsaF |
4-hydroxy-2-oxovalerate aldolase | 682 | 662 | coexpression:607 |
Rv3469c mhpE |
4-hydroxy-2-oxovalerate aldolase MhpE | 681 | 661 | coexpression:606 |
Rv2496c bkdB |
3-methyl-2-oxobutanoate dehydrogenase subunit beta | 831 | 625 | database:500 textmining:569 |
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: branched-chain amino acid aminotransferase
- MTBC0 PGAP product: branched-chain amino acid aminotransferase
- Pfam (hmmscan --cut_ga): Aminotran_4 PF01063.25 (E=1e-27)
- (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_216726.1)
- Domains: Pfam-A via hmmscan --cut_ga — Aminotran_4 (PF01063.25)
- 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
COG0115 - Curated reference: UniProt P9WQ75 (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 —
55 functional partner(s); context anchor
gcvT - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002346|Rv2210c|ilvE MTSGSLQFTVLRAVNPATDAQRESMLREPGFGKYHTDHMVSIDYAEGRGWHNARVIPYGPIELDPSAIVLHYAQEVFEGLKAYRWADGSIVSFRADANAARLRSSARRLAIPELPDAVFIESLRQLIAVDKAWVPGAGGEEALYLRPFIFATEPGLGVRPATQYRYLLIASPAGAYFKGGIAPVSVWVSTEYVRACPGGTGAAKFGGNYAASLLAQAEAAENGCDQVVWLDAVERRYIEEMGGMNIFFVLGSGGSARLVTPELSGSLLPGITRDSLLQLAIDAGFAVEERRIDIDEWQKKAAAGEITEVFACGTAAVITPVARVRHGASEFRIADGQPGEVTMALRDTLTGIQRGTFADTHGWMARLG