ephG Resolved · high auto-curated
H37Rv Rv2740 · MTBC0 mtbc0_002915 ·
149 aa · 3075648–3076097 (+) ·
RefSeq NP_217256.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | epoxide hydrolase |
|---|---|
| MTBC0 PGAP re-annotation | epoxide hydrolase |
| Revised (this work) | Epoxide hydrolase. Pfam: LEH (PF07858.19), SnoaL_2 (PF12680.14). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O33283
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Epoxide hydrolase EphG |
| EC (curated) |
EC 3.3.2.10, EC 3.3.2.11
|
| Curated function | Epoxide hydrolase capable of hydrolyzing long or bulky lipophilic epoxides such as 9,10-epoxystearic acid and cholesterol 5,6-oxide in vitro. The physiological substrates have yet to be identified, but could be fatty acid or steroid derivatives. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
Q Secondary metabolites biosynthesis, transport and catabolism
|
|---|---|
| Preferred name | ephG |
| eggNOG description | Limonene-1,2-epoxide hydrolase |
| Orthologous group | COG4308 |
| EC number |
EC 3.3.2.8
|
| KEGG orthology |
K10533
|
| KEGG pathways |
map00903
|
| Gene Ontology (23) |
GO:0003674, GO:0003824, GO:0004301, GO:0005575, GO:0005623, GO:0005886, GO:0008150, GO:0008152, GO:0009987, GO:0016020, GO:0016787, GO:0016801 +11 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 | 1.05 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 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 |
|---|---|---|---|---|
LEH | PF07858.19 | 4.1e-62 | 15–135 | Limonene-1,2-epoxide hydrolase catalytic domain |
SnoaL_2 | PF12680.14 | 5.2e-12 | 21–119 | SnoaL-like domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv2739c (transferase), high confidence from genomic context alone (score 789 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3618 |
monooxygenase | 926 | 901 | database:900 |
Rv2739c |
transferase | 789 | 789 ctx | neighborhood:788 |
Rv2738c hyp |
hypothetical protein | 788 | 788 ctx | neighborhood:787 |
Rv3169 hyp |
hypothetical protein | 504 | 505 ctx | cooccurence:499 |
Rv1683 |
bifunctional long-chain acyl-CoA synthase/lipase | 494 | 494 ctx | cooccurence:494 |
Rv2741 PE_PGRS47 |
PE-PGRS family protein PE_PGRS47 | 461 | 461 ctx | neighborhood:461 |
Rv3805c aftB |
terminal beta-(1->2)-arabinofuranosyltransferase | 422 | 422 ctx | cooccurence:422 |
Rv0401 |
transmembrane protein | 422 | 422 ctx | cooccurence:422 |
Rv0913c |
dioxygenase | 416 | 416 ctx | cooccurence:409 |
Rv1702c hyp |
hypothetical protein | 434 | 414 ctx | cooccurence:412 |
Rv1148c hyp |
hypothetical protein | 410 | 411 ctx | cooccurence:409 |
Rv2777c hyp |
hypothetical protein | 410 | 411 ctx | cooccurence:410 |
Rv3531c hyp |
hypothetical protein | 406 | 407 | |
Rv3818 hyp |
hypothetical protein | 403 | 403 ctx | cooccurence:403 |
Rv1945 hyp |
hypothetical protein | 421 | 401 |
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: epoxide hydrolase
- MTBC0 PGAP product: epoxide hydrolase
- Pfam (hmmscan --cut_ga): LEH PF07858.19 (E=4e-62), SnoaL_2 PF12680.14 (E=5e-12)
- (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_217256.1)
- Domains: Pfam-A via hmmscan --cut_ga — LEH (PF07858.19), SnoaL_2 (PF12680.14)
- 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
COG4308 - Curated reference: UniProt O33283 (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 —
31 functional partner(s); context anchor
Rv2739c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002915|Rv2740|ephG MAELTETSPETPETTEAIRAVEAFLNALQNEDFDTVDAALGDDLVYENVGFSRIRGGRRTATLLRRMQGRVGFEVKIHRIGADGAAVLTERTDALIIGPLRVQFWVCGVFEVDDGRITLWRDYFDVYDMFKGLLRGLVALVVPSLKATL