ctpI Resolved · high auto-curated
H37Rv Rv0107c · MTBC0 - ·
1632 aa · 125643–130541 (-) ·
RefSeq NP_214621.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | cation-transporter ATPase I |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Cation-transporter ATPase I. Pfam: E1-E2_ATPase (PF00122.26), Hydrolase (PF00702.33), Cation_ATPase (PF13246.13), Cation_ATPase_C (PF00689.27). |
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 |
P9WPS5
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable cation-transporting ATPase I |
| EC (curated) |
EC 7.2.2.-
|
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
P Inorganic ion transport and metabolism
|
|---|---|
| Preferred name | ctpI |
| eggNOG description | ATPase, P-type (transporting), HAD superfamily, subfamily IC |
| Orthologous group | COG0474 |
| KEGG orthology |
K12955
|
| Gene Ontology (69) |
GO:0003674, GO:0003824, GO:0005215, GO:0005388, GO:0005575, GO:0005618, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0005886, GO:0005887 +57 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 | 0.386 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 23 synonymous, 23 missense, 0 nonsense, 3 frameshift |
| Disruption | 3 distinct premature-stop/frameshift site(s); most common in 98.81% of strains (143475) · reference-fixed |
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 |
|---|---|---|---|---|
E1-E2_ATPase | PF00122.26 | 3.6e-20 | 852–952 | P-type ATPase actuator domain |
Hydrolase | PF00702.33 | 6.0e-19 | 1047–1352 | haloacid dehalogenase-like hydrolase |
Cation_ATPase | PF13246.13 | 3.9e-13 | 1106–1247 | P-type ATPase, cytoplasmic domain N |
Cation_ATPase_C | PF00689.27 | 1.3e-09 | 1427–1570 | Cation transporting ATPase, C-terminus |
Functional interaction network (STRING v12, guilt-by-association)
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1305 atpE |
ATP synthase subunit C | 629 | 606 | database:551 |
Rv1747 |
ABC transporter ATP-binding protein/permease | 602 | 576 | coexpression:410 |
Rv3886c mycP2 |
membrane-anchored mycosin | 558 | 538 | |
Rv1796 mycP5 |
membrane-anchored mycosin MycP | 555 | 536 | |
Rv1811 mgtC |
Mg2+ transport P-type ATPase MgtC | 545 | 517 | coexpression:409 |
Rv3008 hyp |
hypothetical protein | 543 | 515 | coexpression:407 |
Rv2483c plsC |
bifunctional L-3-phosphoserine phosphatase/1-acyl-sn-glycerol-3-phosphate acyltransferase | 510 | 488 | database:451 |
Rv3005c hyp |
hypothetical protein | 483 | 483 | |
Rv3486 hyp |
hypothetical protein | 480 | 481 | |
Rv3064c |
integral membrane protein | 479 | 480 | |
Rv0924c mntH |
divalent metal cation transporter MntH | 660 | 474 | |
Rv3883c mycP1 |
membrane-anchored mycosin | 491 | 469 | |
Rv0291 mycP3 |
membrane-anchored mycosin MycP | 491 | 469 | |
Rv3449 mycP4 |
membrane-anchored mycosin | 488 | 466 | |
Rv3026c hyp |
hypothetical protein | 467 | 466 | database:451 |
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): cation-transporter ATPase I
- Pfam (hmmscan --cut_ga): E1-E2_ATPase PF00122.26 (E=4e-20), Hydrolase PF00702.33 (E=6e-19), Cation_ATPase PF13246.13 (E=4e-13), Cation_ATPase_C PF00689.27 (E=1e-09)
- (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_214621.1)
- Domains: Pfam-A via hmmscan --cut_ga — E1-E2_ATPase (PF00122.26), Hydrolase (PF00702.33), Cation_ATPase (PF13246.13), Cation_ATPase_C (PF00689.27)
- 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
COG0474 - Curated reference: UniProt P9WPS5 (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 — 50 functional partner(s)
- Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv0107c|ctpI MKIPGVATVLGGVTNGVAQTVRAGARLPGSAAAAVQTLASPVLELTGPVVQSVVQTTGRAIGVRGSHNESPDGMTPPVRWRSGRRVHFDLDPLLPFPRWHEHAAMVEEPVRRIPGVAEAHVEGSLGRLVVELEPDADSDIAVDEVRDVVSAVAADIFLAGSVSSPNSAPFADPGNPLAILVPLTAAAMDLVAMGATVTGWVARLPAAPQTTRALAALINHQPRMVSLMESRLGRVGTDIALAATTAAANGLTQSLGTPLLDLVQRSLQISEAAAHRRVWRDREPALASPRRPQAPVVPIISSAGAKSQEPRHSWAAAAAGEASHVVVGGSIDAAIDTAKGSRAGPVEQYVNQAANGSLIAAASALVAGGGTEDAAGAILAGVPRAAHMGRQAFAAVLGRGLANTGQLVLDPGALRRLDRVRVVVIDGAALRGDNRAVLHAQGDEPGWDDDRVYEVADALLHGEQAPEPDPDELPATGARLRWAPAQGPSATPAQGLEHADLVVDGQCVGSVDVGWEVDPYAIPLLQTAHRTGARVVLRHVAGTEDLSASVGSTHPPGTPLLKLVRELRADRGPVLLITAVHRDFASTDTLAALAIADVGVALDDPRGATPWTADLITGTDLAAAVRILSALPVARAASESAVHLAQGGTTLAGLLLVTGEQDKTTNPASFRRWLNPVNAAAATALVSGMWSAAKVLRMPDPTPQPLTAWHALDPEIVYSRLAGGSRPLAVEPGIPAWRRILDDLSYEPVMAPLRGPARTLAQLAVATRHELADPLTPILAVGAAASAIVGSNIDALLVAGVMTVNAITGGVQRLRAEAAAAELFAEQDQLVRRVVVPAVATTRRRLEAARHATRTATVSAKSLRVGDVIDLAAPEVVPADARLLVAEDLEVDESFLTGESLPVDKQVDPVAVNDPDRASMLFEGSTIVAGHARAIVVATGVGTAAHRAISAVADVETAAGVQARLRELTSKVLPMTLAGGAAVTALALLRRASLRQAVADGVAIAVAAVPEGLPLVATLSQLAAAQRLTARGALVRSPRTIEALGRVDTICFDKTGTLTENRLRVVCALPSSTAAERDPLPQTTDAPSAEVLRAAARASTQPHNGEGHAHATDEAILAAASALAGSLSSQGDSEWVVLAEVPFESSRGYAAAIGRVGTDGIPMLMLKGAPETILPRCRLADPGVDHEHAESVVRHLAEQGLRVLAVAQRTWDNGTTHDDETDADAVDAVAHDLELIGYVGLADTARSSSRPLIEALLDAERNVVLITGDHPITARAIARQLGLPADARVVTGAELAVLDEEAHAKLAADMQVFARVSPEQKVQIVAALQRCGRVTAMVGDGANDAAAIRMADVGIGVSGRGSSAARGAADIVLTDDDLGVLLDALVEGRSMWAGVRDAVTILVGGNVGEVLFTVIGTAFGAGRAPVGTRQLLLVNLLTDMFPALAVAVTSQFAEPDDAEYPTDDAAERAQREHRRAVLIGPTPSLDAPLLRQIVNRGVVTAAGATAAWAIGRWTPGTERRTATMGLTALVMTQLAQTLLTRRHSPLVIATALGSAGVLVGIIQTPVISHFSGVPRWDRSPGRASSAPRQEPPQSQRWHRSGWQAQSVSCNLMNALTTRKTLTRVDRTYRRPR