pstP Resolved · high auto-curated
H37Rv Rv0018c · MTBC0 - ·
514 aa · 21637–23181 (-) ·
RefSeq NP_214532.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | phosphoserine/threonine phosphatase PstP |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Phosphoserine/threonine phosphatase PstP. Pfam: PP2C (PF00481.27), PP2C_2 (PF13672.12). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Annotated on the H37Rv protein: this gene has no 1:1 ancestral MTBC0 anchor (PE/PPE, paralogue, IS element, or otherwise unanchored CDS).
Curated reference (UniProt)
| UniProt |
P9WHW5
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Serine/threonine protein phosphatase PstP |
| EC (curated) |
EC 3.1.3.16
|
| Curated function | Plays an important role in regulating cell division and growth by reversible phosphorylation signaling. May play important roles in regulating cellular metabolism and signaling pathways, which could mediate the growth and development of the cell. Plays a role in establishing and maintaining infection. Dephosphorylates several proteins, including the kinases PknA, PknB, PknD, PknE, PknF, PknH, PknJ and Pyk, the transcriptional regulatory proteins EmbR and EthR, the osmosensory protein OprA and the dimycocerosyl transferase PapA5. In vitro, dephosphorylates the phosphorylated Ser/Thr residues of. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
T Signal transduction mechanisms
|
|---|---|
| Preferred name | pstP |
| eggNOG description | PFAM Protein phosphatase 2C |
| Orthologous group | COG0631 |
| EC number |
EC 3.1.3.16
|
| KEGG orthology |
K20074
|
| Gene Ontology (93) |
GO:0000287, GO:0001932, GO:0001933, GO:0003674, GO:0003824, GO:0004647, GO:0004721, GO:0005488, GO:0005575, GO:0005618, GO:0005623, GO:0005886 +81 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 | 0.842 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 4 synonymous, 9 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 |
|---|---|---|---|---|
PP2C | PF00481.27 | 4.4e-06 | 26–136 | Protein phosphatase 2C |
PP2C_2 | PF13672.12 | 4.9e-12 | 27–201 | Protein phosphatase 2C |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: pknB (serine/threonine-protein kinase PknB), high confidence from genomic context alone (score 997 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0014c pknB |
serine/threonine-protein kinase PknB | 999 | 997 ctx | neighborhood:881 cooccurence:770 coexpression:667 experimental:693 textmining:920 |
Rv0015c pknA |
serine/threonine-protein kinase PknA | 998 | 982 ctx | neighborhood:882 cooccurence:769 textmining:930 |
Rv1407 fmu |
16S rRNA m5C967 methyltransferase | 942 | 934 | coexpression:906 |
Rv0017c rodA |
cell division protein RodA | 982 | 910 ctx | neighborhood:882 textmining:815 |
Rv0016c pbpA |
penicillin-binding protein PbpA | 992 | 901 ctx | neighborhood:882 textmining:931 |
Rv0931c pknD |
serine/threonine-protein kinase PknD | 903 | 877 ctx | cooccurence:750 coexpression:440 |
Rv2211c gcvT |
aminomethyltransferase | 874 | 868 | database:844 |
Rv0019c fhaB |
FHA domain-containing protein FhaB | 988 | 863 ctx | neighborhood:780 textmining:916 |
Rv2176 pknL |
serine/threonine-protein kinase PknL | 950 | 862 ctx | cooccurence:769 textmining:659 |
Rv1743 pknE |
serine/threonine-protein kinase PknE | 902 | 855 ctx | cooccurence:762 |
Rv1746 pknF |
serine/threonine-protein kinase PknF | 888 | 848 ctx | cooccurence:769 |
Rv2088 pknJ |
transmembrane serine/threonine-protein kinase PknJ | 897 | 847 ctx | cooccurence:770 |
Rv2914c pknI |
serine/threonine-protein kinase PknI | 880 | 847 ctx | cooccurence:769 |
Rv1266c pknH |
serine/threonine-protein kinase PknH | 888 | 842 ctx | cooccurence:761 |
Rv2496c bkdB |
3-methyl-2-oxobutanoate dehydrogenase subunit beta | 819 | 808 | experimental:469 database:635 |
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
- Annotation from H37Rv (no MTBC0 1:1 anchor; H37Rv protein used): phosphoserine/threonine phosphatase PstP
- Pfam (hmmscan --cut_ga): PP2C PF00481.27 (E=4e-06), PP2C_2 PF13672.12 (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_214532.1)
- Domains: Pfam-A via hmmscan --cut_ga — PP2C (PF00481.27), PP2C_2 (PF13672.12)
- 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
COG0631 - Curated reference: UniProt P9WHW5 (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 —
107 functional partner(s); context anchor
pknB - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv0018c|pstP MARVTLVLRYAARSDRGLVRANNEDSVYAGARLLALADGMGGHAAGEVASQLVIAALAHLDDDEPGGDLLAKLDAAVRAGNSAIAAQVEMEPDLEGMGTTLTAILFAGNRLGLVHIGDSRGYLLRDGELTQITKDDTFVQTLVDEGRITPEEAHSHPQRSLIMRALTGHEVEPTLTMREARAGDRYLLCSDGLSDPVSDETILEALQIPEVAESAHRLIELALRGGGPDNVTVVVADVVDYDYGQTQPILAGAVSGDDDQLTLPNTAAGRASAISQRKEIVKRVPPQADTFSRPRWSGRRLAFVVALVTVLMTAGLLIGRAIIRSNYYVADYAGSVSIMRGIQGSLLGMSLHQPYLMGCLSPRNELSQISYGQSGGPLDCHLMKLEDLRPPERAQVRAGLPAGTLDDAIGQLRELAANSLLPPCPAPRATSPPGRPAPPTTSETTEPNVTSSPASPSPTTSAPAPTGTTPAIPTSASPAAPASPPTPWPVTSSPTMAALPPPPPQPGIDCRAAA