echA21 Family assigned · medium auto-curated
H37Rv Rv3774 · MTBC0 mtbc0_004001 ·
274 aa · 4242970–4243794 (+) ·
RefSeq NP_218291.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | enoyl-CoA hydratase EchA21 |
|---|---|
| MTBC0 PGAP re-annotation | crotonase/enoyl-CoA hydratase family protein |
| Revised (this work) | Crotonase/enoyl-CoA hydratase family protein. Pfam: ECH_1 (PF00378.26), ECH_2 (PF16113.11). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P75019
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Possible enoyl-CoA hydratase EchA21 |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
I Lipid transport and metabolism
|
|---|---|
| Preferred name | echA21 |
| eggNOG description | Enoyl-CoA hydratase |
| Orthologous group | COG1024 |
| EC number |
EC 4.2.1.17
|
| KEGG orthology |
K01692
|
| KEGG pathways |
map00071, map00280, map00281, map00310, map00360, map00362, map00380, map00410, map00627, map00640, map00650, map00903, map00930, map01100, map01110, map01120, map01130, map01212
|
| KEGG modules |
M00032, M00087
|
| Gene Ontology (14) |
GO:0005575, GO:0005622, GO:0005623, GO:0005737, GO:0005739, GO:0005777, GO:0042579, GO:0043226, GO:0043227, GO:0043229, GO:0043231, GO:0044424 +2 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 | 0.191 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 7 synonymous, 4 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 |
|---|---|---|---|---|
ECH_1 | PF00378.26 | 3.8e-40 | 11–273 | Enoyl-CoA hydratase/isomerase |
ECH_2 | PF16113.11 | 1.1e-15 | 18–200 | Enoyl-CoA hydratase/isomerase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: lipE (lipase LipE), high confidence from genomic context alone (score 878 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3775 lipE |
lipase LipE | 877 | 878 ctx | neighborhood:872 |
Rv0468 fadB2 |
3-hydroxybutyryl-CoA dehydrogenase | 882 | 871 | database:650 |
Rv0154c fadE2 |
acyl-CoA dehydrogenase FadE2 | 854 | 846 | database:750 |
Rv0400c fadE7 |
acyl-CoA dehydrogenase FadE7 | 854 | 845 | database:750 |
Rv3140 fadE23 |
acyl-CoA dehydrogenase FadE23 | 853 | 845 | database:750 |
Rv0231 fadE4 |
acyl-CoA dehydrogenase FadE4 | 850 | 845 | database:750 |
Rv1715 fadB3 |
3-hydroxybutyryl-CoA dehydrogenase FadB | 882 | 844 | database:650 |
Rv0131c fadE1 |
acyl-CoA dehydrogenase FadE1 | 853 | 844 | database:750 |
Rv0975c fadE13 |
acyl-CoA dehydrogenase FadE13 | 853 | 844 | database:750 |
Rv2500c fadE19 |
acyl-CoA dehydrogenase FadE19 | 852 | 844 | database:750 |
Rv0860 fadB |
fatty oxidation protein FadB | 887 | 800 | database:650 textmining:462 |
Rv3773c hyp |
hypothetical protein | 792 | 792 ctx | neighborhood:790 |
Rv2524c fas |
fatty acid synthase | 816 | 789 | coexpression:646 |
Rv0243 fadA2 |
acetyl-CoA acetyltransferase FadA | 773 | 752 | coexpression:401 database:447 |
Rv1074c fadA3 |
beta-ketoacyl CoA thiolase FadA | 761 | 751 | database:447 |
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: enoyl-CoA hydratase EchA21
- MTBC0 PGAP product: crotonase/enoyl-CoA hydratase family protein
- Pfam (hmmscan --cut_ga): ECH_1 PF00378.26 (E=4e-40), ECH_2 PF16113.11 (E=1e-15)
- (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_218291.1)
- Domains: Pfam-A via hmmscan --cut_ga — ECH_1 (PF00378.26), ECH_2 (PF16113.11)
- 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
COG1024 - Curated reference: UniProt P75019 (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 —
156 functional partner(s); context anchor
lipE - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_004001|Rv3774|echA21 MGETYESVTVETKDQVAQVTLIGPGKGNAMGPAFWSEMPEVFHALDADREVRAIVITGSGKNFSYGLDVPAMGGMFAPLIADGALARPRTDFHTEILRMQKAINAVADCRTPTIAAVQGWCIGGAVDLISAVDIRYASADAKFSVREVKLAIVADMGSLARLPLILSDGHLRELALTGKNIDAARAEKIGLVNDVYDDADQTLAAAHATAAEIAANPPLAVYGIKDVLDQQRTSAVSENLRYVAAWNAAFLPSKDLTEGISATFAKRPPQFTGE