Rv2672 Resolved · high auto-curated
H37Rv Rv2672 · MTBC0 mtbc0_002846 ·
528 aa · 3009885–3011471 (+) ·
RefSeq NP_217188.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | protease |
|---|---|
| MTBC0 PGAP re-annotation | alpha/beta fold hydrolase |
| Revised (this work) | Alpha/beta fold hydrolase. Pfam: Abhydrolase_1 (PF00561.27), Abhydrolase_4 (PF08386.17). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P71969
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Possible secreted protease |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | Alpha beta hydrolase |
| Orthologous group | COG0596 |
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 | 0.616 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 4 synonymous, 7 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 |
|---|---|---|---|---|
Abhydrolase_1 | PF00561.27 | 1.9e-09 | 160–313 | alpha/beta hydrolase fold |
Abhydrolase_4 | PF08386.17 | 3.3e-21 | 424–526 | TAP-like protein |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: aftC (alpha-(1->3)-arabinofuranosyltransferase), high confidence from genomic context alone (score 909 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2673 aftC |
alpha-(1->3)-arabinofuranosyltransferase | 909 | 909 ctx | neighborhood:849 cooccurence:414 |
Rv1275 lprC |
lipoprotein LprC | 767 | 768 ctx | cooccurence:755 |
Rv3035 hyp |
hypothetical protein | 756 | 757 ctx | cooccurence:745 |
Rv0817c lmeA hyp |
hypothetical protein | 750 | 751 ctx | cooccurence:750 |
Rv2674 msrB |
peptide methionine sulfoxide reductase MsrB | 748 | 749 ctx | neighborhood:747 |
Rv1274 lprB |
lipoprotein LprB | 748 | 749 ctx | cooccurence:745 |
Rv3244c lpqB |
lipoprotein LpqB | 737 | 738 ctx | cooccurence:736 |
Rv0466 hyp |
hypothetical protein | 714 | 715 ctx | cooccurence:713 |
Rv0383c ttfA hyp |
hypothetical protein | 713 | 713 ctx | cooccurence:713 |
Rv0290 eccD3 |
ESX-3 secretion system protein EccD | 699 | 700 ctx | cooccurence:699 |
Rv2671 ribD |
bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase | 724 | 664 ctx | neighborhood:659 |
Rv1125 hyp |
hypothetical protein | 663 | 664 ctx | cooccurence:662 |
Rv3668c |
protease | 653 | 653 ctx | cooccurence:649 |
Rv1109c hyp |
hypothetical protein | 648 | 648 ctx | cooccurence:645 |
Rv3910 murJ |
peptidoglycan biosynthesis protein | 642 | 643 ctx | cooccurence:628 |
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: protease
- MTBC0 PGAP product: alpha/beta fold hydrolase
- Pfam (hmmscan --cut_ga): Abhydrolase_1 PF00561.27 (E=2e-09), Abhydrolase_4 PF08386.17 (E=3e-21)
- (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_217188.1)
- Domains: Pfam-A via hmmscan --cut_ga — Abhydrolase_1 (PF00561.27), Abhydrolase_4 (PF08386.17)
- 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
COG0596 - Curated reference: UniProt P71969 (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 —
125 functional partner(s); context anchor
aftC - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002846|Rv2672| MATVVGMSRPMTSTAMLVALTCSATVLAACVPAFGADPRFATYSGAGPQGAATTTPPPAGPPPLAAPKNDLSWHDCTSRVYSNAGIPAAPGVKLECASYDTDLDPLVGGSTAVSIGVVRARSNQTPSDAGPLVFTTGSDLPSSTQLPVWLAHAGIDVLRSHPIVAVDRRGMGMSSPIDCRDHFDRDEMRDQAQFQAGDDPVANLSDISNTATTDCTDAIAPGESAYDNTHAASDIERLRKLWDVPALAFVGIGNGTQVALAYAASRPDNVARLILDSPIALGVSAEAAAEQQVQGQQAALDAFAAQCVAVNCALGSDPKGAVSALLSAARSGDGPGGASVAAVANAVATALGFPDSGRVDSTTKLADALAAARSGDMNLLSALINRADTTRDTDGQFISSCSDAVNRPTPDRVRELVVAWGKLYPQFGAVAALNLVKCVHWPSSSPPQPPKDLKVDVLLLGVQNDPIVGNEGVAATAATAINANAASKRVMWQGIGHGASIYSSCAVPPLVAYLDTGKLPDTDTYCPA