Rv2715 Family assigned · medium auto-curated
H37Rv Rv2715 · MTBC0 mtbc0_002889 ·
341 aa · 3050513–3051538 (+) ·
RefSeq NP_217231.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hydrolase |
|---|---|
| MTBC0 PGAP re-annotation | alpha/beta hydrolase |
| Revised (this work) | Alpha/beta hydrolase. Pfam: Abhydrolase_1 (PF00561.27), Hydrolase_4 (PF12146.16), Abhydrolase_6 (PF12697.14). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WNH3
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized protein Rv2715 |
UniProt still lists this protein as Uncharacterized protein Rv2715; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
I Lipid transport and metabolism
|
|---|---|
| eggNOG description | Alpha beta hydrolase |
| Orthologous group | COG2267 |
| Gene Ontology (6) |
GO:0005575, GO:0005623, GO:0005886, GO:0016020, GO:0044464, GO:0071944
|
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) pseudogene candidate
| pN/pS | 0.443 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 4 synonymous, 5 missense, 0 nonsense, 2 frameshift |
| Disruption | 2 distinct premature-stop/frameshift site(s); most common in 3.30% of strains (4789) · clonal |
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 | 1.7e-31 | 38–282 | alpha/beta hydrolase fold |
Hydrolase_4 | PF12146.16 | 6.3e-16 | 39–280 | Serine aminopeptidase, S33 |
Abhydrolase_6 | PF12697.14 | 1.7e-29 | 40–287 | Alpha/beta hydrolase family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: sthA (pyridine nucleotide transhydrogenase), medium confidence from genomic context alone (score 543 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2716 hyp |
hypothetical protein | 836 | 837 ctx | neighborhood:813 |
Rv2714 hyp |
hypothetical protein | 803 | 803 ctx | neighborhood:802 |
Rv2713 sthA |
pyridine nucleotide transhydrogenase | 544 | 543 ctx | neighborhood:464 |
Rv2940c mas |
multifunctional mycocerosic acid synthase | 546 | 520 | experimental:441 |
Rv3825c pks2 |
phthioceranic/hydroxyphthioceranic acid synthase | 531 | 504 | experimental:441 |
Rv2933 ppsC |
phthiocerol synthesis polyketide synthase type I PpsC | 531 | 504 | experimental:441 |
Rv2048c pks12 |
polyketide synthase | 531 | 504 | experimental:441 |
Rv1527c pks5 |
polyketide synthase | 528 | 500 | experimental:441 |
Rv2946c pks1 |
polyketide synthase | 493 | 463 | |
Rv0983 pepD |
serine protease PepD | 459 | 458 | |
Rv3671c marP |
serine protease | 470 | 450 | |
Rv1181 pks4 |
polyketide beta-ketoacyl synthase | 457 | 433 | |
Rv1661 pks7 |
polyketide synthase | 452 | 428 | |
Rv1663 pks17 |
polyketide synthase | 435 | 414 | |
Rv1938 ephB |
epoxide hydrolase EphB | 803 | 238 | textmining:753 |
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: hydrolase
- MTBC0 PGAP product: alpha/beta hydrolase
- Pfam (hmmscan --cut_ga): Abhydrolase_1 PF00561.27 (E=2e-31), Hydrolase_4 PF12146.16 (E=6e-16), Abhydrolase_6 PF12697.14 (E=2e-29)
- (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_217231.1)
- Domains: Pfam-A via hmmscan --cut_ga — Abhydrolase_1 (PF00561.27), Hydrolase_4 (PF12146.16), Abhydrolase_6 (PF12697.14)
- 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
COG2267 - Curated reference: UniProt P9WNH3 (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 —
25 functional partner(s); context anchor
sthA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002889|Rv2715| MTERKRNLRPVRDVAPPTLQFRTVHGYRRAFRIAGSGPAILLIHGIGDNSTTWNGVHAKLAQRFTVIAPDLLGHGQSDKPRADYSVAAYANGMRDLLSVLDIERVTIVGHSLGGGVAMQFAYQFPQLVDRLILVSAGGVTKDVNIVFRLASLPMGSEAMALLRLPLVLPAVQIAGRIVGKAIGTTSLGHDLPNVLRILDDLPEPTASAAFGRTLRAVVDWRGQMVTMLDRCYLTEAIPVQIIWGTKDVVLPVRHAHMAHAAMPGSQLEIFEGSGHFPFHDDPARFIDIVERFMDTTEPAEYDQAALRALLRRGGGEATVTGSADTRVAVLNAIGSNERSAT