pitB Resolved · high auto-curated
H37Rv Rv2281 · MTBC0 mtbc0_002422 ·
552 aa · 2577920–2579578 (+) ·
RefSeq NP_216797.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | phosphate permease |
|---|---|
| MTBC0 PGAP re-annotation | anion permease |
| Revised (this work) | Anion permease. Pfam: PHO4 (PF01384.26). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WIA5
SwissProt · reviewed
· Inferred from homology
|
|---|---|
| UniProt name | Putative phosphate permease Rv2281 |
| Curated function | Potential transporter for phosphate. |
UniProt still lists this protein as Putative phosphate permease Rv2281; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
P Inorganic ion transport and metabolism
|
|---|---|
| Preferred name | pitB |
| eggNOG description | Phosphate transporter family |
| Orthologous group | COG0306 |
| KEGG orthology |
K03306
|
| Gene Ontology (33) |
GO:0003674, GO:0005215, GO:0005315, GO:0005575, GO:0005623, GO:0005886, GO:0005887, GO:0006810, GO:0006811, GO:0006817, GO:0006820, GO:0008150 +21 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 | 0.242 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 7 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 |
|---|---|---|---|---|
PHO4 | PF01384.26 | 4.8e-108 | 84–541 | Phosphate transporter family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv2280 (Rv2280, (MTCY339.30c), len: 459 aa. Probable dehydrogenase. Similar to D-lactate dehydrogenase (cytochrome) precursor e.g. G1061264 (587 aa)), medium confidence from genomic context alone (score 484 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2847c cysG |
multifunctional uroporphyrin-III C-methyltransferase/precorrin-2 oxidase/ferrochelatase | 569 | 507 | coexpression:440 |
Rv2280 |
Rv2280, (MTCY339.30c), len: 459 aa. Probable dehydrogenase. Similar to D-lactate dehydrogenase (cytochrome) precursor e.g. G1061264 (587 aa) | 484 | 484 ctx | neighborhood:459 |
Rv1640c lysX |
bifunctional lysine--tRNA ligase/phosphatidylglycerol lysyltransferase | 458 | 458 | coexpression:444 |
Rv2883c pyrH |
uridylate kinase | 421 | 422 | coexpression:421 |
Rv3598c lysS |
lysine--tRNA ligase | 417 | 417 | coexpression:415 |
Rv1286 cysC |
adenylyl-sulfate kinase | 432 | 354 | |
Rv3232c ppk2 |
polyphosphate kinase | 410 | 350 | |
Rv0545c pitA |
low-affinity inorganic phosphate transporter | 480 | 311 | |
Rv3859c gltB |
glutamate synthase large subunit | 579 | 110 | textmining:547 |
Rv0935 pstC1 |
phosphate ABC transporter permease PstC | 507 | 76 | textmining:489 |
Rv0933 pstB |
phosphate ABC transporter ATP-binding protein PstB | 515 | 73 | textmining:499 |
Rv0934 pstS1 |
phosphate ABC transporter substrate-binding lipoprotein PstS | 414 | 73 | |
Rv0819 mshD |
mycothiol acetyltransferase | 421 | 69 | textmining:404 |
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: phosphate permease
- MTBC0 PGAP product: anion permease
- Pfam (hmmscan --cut_ga): PHO4 PF01384.26 (E=5e-108)
- (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_216797.1)
- Domains: Pfam-A via hmmscan --cut_ga — PHO4 (PF01384.26)
- 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
COG0306 - Curated reference: UniProt P9WIA5 (SwissProt, reviewed; Inferred from homology)
- 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 —
13 functional partner(s); context anchor
Rv2280 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002422|Rv2281|pitB MSDNAKHHRDGHLVASGLQDRAARTPQHEGFLGPDRPWHLSFSLLLAGSFVLFSWWAFDYAGSGANKVILVLATVVGMFMAFNVGGNDVANSFGTSVGAGTLTMKQALLVAAIFEVSGAVIAGGDVTETIRSGIVDLSGVSVDPRDFMNIMLSALSAAALWLLFANRMGYPVSTTHSIIGGIVGAAIALGMVSGQGGAALRMVQWDQIGQIVVSWVLSPVLGGLVSYLLYGVIKRHILLYNEQAERRLTEIKKERIAHRERHKAAFDRLTEIQQIAYTGALARDAVAANRKDFDPDELESDYYRELHEIDAKTSSVDAFRALQNWVPLVAAAGSMIIVAMLLFKGFKHMHLGLTTMNNYFIIAMVGAAVWMATFIFAKTLRGESLSRSTFLMFSWMQVFTASGFAFSHGSNDIANAIGPFAAILDVLRTGAIEGNAAVPAAAMVTFGVALCAGLWFIGRRVIATVGHNLTTMHPASGFAAELSAAGVVMGATVLGLPVSSTHILIGAVLGVGIVNRSTNWGLMKPIVLAWVITLPSAAILASVGLVALRAIF