mycP5 Resolved · high auto-curated
H37Rv Rv1796 · MTBC0 mtbc0_001909 ·
585 aa · 2051740–2053497 (+) ·
RefSeq NP_216312.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | membrane-anchored mycosin MycP |
|---|---|
| MTBC0 PGAP re-annotation | type VII secretion system ESX-5 serine protease mycosin MycP5 |
| Revised (this work) | Type VII secretion system ESX-5 serine protease mycosin MycP5. Pfam: Peptidase_S8 (PF00082.28). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O53945
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Mycosin-5 |
| EC (curated) |
EC 3.4.21.-
|
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
O Post-translational modification, protein turnover, chaperones
|
|---|---|
| Preferred name | mycP5 |
| eggNOG description | Peptidase S8 |
| Orthologous group | COG1404 |
| KEGG orthology |
K14743
|
| Gene Ontology (2) |
GO:0005575, GO:0005576
|
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 | 0.224 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 8 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 |
|---|---|---|---|---|
Peptidase_S8 | PF00082.28 | 1.9e-22 | 269–513 | Subtilase family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: eccD5 (ESX-5 type VII secretion system protein EccD), high confidence from genomic context alone (score 998 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1795 eccD5 |
ESX-5 type VII secretion system protein EccD | 999 | 998 ctx | neighborhood:881 cooccurence:746 coexpression:730 experimental:800 textmining:671 |
Rv1797 eccE5 |
ESX-5 type VII secretion system protein EccE | 987 | 973 ctx | neighborhood:881 coexpression:785 textmining:541 |
Rv1782 eccB5 |
ESX-5 type VII secretion system protein EccB5 | 987 | 960 ctx | cooccurence:765 experimental:828 textmining:706 |
Rv1798 eccA5 |
ESX-5 type VII secretion system protein EccA | 970 | 949 ctx | neighborhood:780 coexpression:732 textmining:439 |
Rv1783 eccC5 |
ESX-5 type VII secretion system protein EccC5 | 984 | 940 ctx | cooccurence:698 experimental:800 textmining:752 |
Rv3895c eccB2 |
ESX-2 secretion system protein EccB | 809 | 809 ctx | cooccurence:765 |
Rv3450c eccB4 |
ESX-4 secretion system protein EccB4 | 755 | 735 ctx | cooccurence:675 |
Rv1794 espG5 hyp |
hypothetical protein | 836 | 734 ctx | neighborhood:721 textmining:411 |
Rv3448 eccD4 |
ESX-4 secretion system protein EccD4 | 791 | 714 ctx | cooccurence:696 |
Rv3899c hyp |
hypothetical protein | 715 | 705 ctx | cooccurence:618 |
Rv3887c eccD2 |
ESX-2 secretion system protein EccD | 698 | 697 ctx | cooccurence:676 |
Rv3894c eccC2 |
ESX-2 type VII secretion system protein EccC | 779 | 682 ctx | cooccurence:664 |
Rv0497 |
transmembrane protein | 649 | 649 ctx | cooccurence:647 |
Rv2423 hyp |
hypothetical protein | 636 | 636 ctx | cooccurence:636 |
Rv0358 hyp |
hypothetical protein | 652 | 631 ctx | cooccurence:588 |
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: membrane-anchored mycosin MycP
- MTBC0 PGAP product: type VII secretion system ESX-5 serine protease mycosin MycP5
- Pfam (hmmscan --cut_ga): Peptidase_S8 PF00082.28 (E=2e-22)
- (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_216312.1)
- Domains: Pfam-A via hmmscan --cut_ga — Peptidase_S8 (PF00082.28)
- 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
COG1404 - Curated reference: UniProt O53945 (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 —
86 functional partner(s); context anchor
eccD5 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001909|Rv1796|mycP5 MQRFGTGSSRSWCGRAGTATIAAVLLASGALTGLPPAYAISPPTIDPGALPPDGPPGPLAPMKQNAYCTEVGVLPGTDFQLQPKYMEMLNLNEAWQFGRGDGVKVAVIDTGVTPHPRLPRLIPGGDYVMAGGDGLSDCDAHGTLVASMIAAVPANGAVPLPSVPRRPVTIPTTETPPPPQTVTLSPVPPQTVTVIPAPPPEEGVPPGAPVPGPEPPPAPGPQPPAVDRGGGTVTVPSYSGGRKIAPIDNPRNPHPSAPSPALGPPPDAFSGIAPGVEIISIRQSSQAFGLKDPYTGDEDPQTAQKIDNVETMARAIVHAANMGASVINISDVMCMSARNVIDQRALGAAVHYAAVDKDAVIVAAAGDGSKKDCKQNPIFDPLQPDDPRAWNAVTTVVTPSWFHDYVLTVGAVDANGQPLSKMSIAGPWVSISAPGTDVVGLSPRDDGLINAIDGPDNSLLVPAGTSFSAAIVSGVAALVRAKFPELSAYQIINRLIHTARPPARGVDNQVGYGVVDPVAALTWDVPKGPAEPPKQLSAPLVVPQPPAPRDMVPIWVAAGGLAGALLIGGAVFGTATLMRRSRKQQ