ctpE Resolved · high auto-curated
H37Rv Rv0908 · MTBC0 mtbc0_000962 ·
797 aa · 1014946–1017339 (+) ·
RefSeq NP_215423.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | metal cation transporter ATPase E |
|---|---|
| MTBC0 PGAP re-annotation | cation-translocating P-type ATPase |
| Revised (this work) | Cation-translocating P-type ATPase. Pfam: E1-E2_ATPase (PF00122.26), Hydrolase (PF00702.33), Hydrolase_3 (PF08282.19). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WPT1
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Calcium-transporting ATPase CtpE |
| EC (curated) |
EC 7.2.2.10
|
| Curated function | P-type ATPase involved in specific uptake of calcium. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
P Inorganic ion transport and metabolism
|
|---|---|
| Preferred name | ctpE |
| eggNOG description | ATPase, P-type (transporting), HAD superfamily, subfamily IC |
| Orthologous group | COG0474 |
| KEGG orthology |
K12952
|
| Gene Ontology (64) |
GO:0003674, GO:0003824, GO:0005215, GO:0005388, GO:0005575, GO:0005622, GO:0005623, GO:0005886, GO:0005887, GO:0006810, GO:0006811, GO:0006812 +52 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 | 0.205 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 7 synonymous, 4 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 |
|---|---|---|---|---|
E1-E2_ATPase | PF00122.26 | 1.8e-23 | 104–196 | P-type ATPase actuator domain |
Hydrolase | PF00702.33 | 5.7e-16 | 295–548 | haloacid dehalogenase-like hydrolase |
Hydrolase_3 | PF08282.19 | 8.5e-05 | 520–571 | haloacid dehalogenase-like hydrolase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: echA6 (enoyl-CoA hydratase EchA6), medium confidence from genomic context alone (score 685 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0907 hyp |
hypothetical protein | 939 | 903 ctx | neighborhood:881 |
Rv0906 hyp |
hypothetical protein | 789 | 790 ctx | neighborhood:787 |
Rv0905 echA6 |
enoyl-CoA hydratase EchA6 | 685 | 685 ctx | neighborhood:682 |
Rv1747 |
ABC transporter ATP-binding protein/permease | 663 | 641 | coexpression:421 |
Rv1305 atpE |
ATP synthase subunit C | 630 | 608 | database:551 |
Rv0909 |
antitoxin | 576 | 576 ctx | neighborhood:544 |
Rv1488 hyp |
hypothetical protein | 558 | 533 | |
Rv3008 hyp |
hypothetical protein | 546 | 518 | coexpression:410 |
Rv1811 mgtC |
Mg2+ transport P-type ATPase MgtC | 545 | 517 | coexpression:409 |
Rv0904c accD3 |
acetyl-CoAcarboxylase carboxyl transferase subunit beta | 533 | 495 ctx | neighborhood:493 |
Rv3005c hyp |
hypothetical protein | 485 | 485 | |
Rv2483c plsC |
bifunctional L-3-phosphoserine phosphatase/1-acyl-sn-glycerol-3-phosphate acyltransferase | 506 | 484 | database:451 |
Rv3486 hyp |
hypothetical protein | 483 | 483 | |
Rv3064c |
integral membrane protein | 481 | 481 | |
Rv0924c mntH |
divalent metal cation transporter MntH | 645 | 480 |
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: metal cation transporter ATPase E
- MTBC0 PGAP product: cation-translocating P-type ATPase
- Pfam (hmmscan --cut_ga): E1-E2_ATPase PF00122.26 (E=2e-23), Hydrolase PF00702.33 (E=6e-16), Hydrolase_3 PF08282.19 (E=9e-05)
- (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_215423.1)
- Domains: Pfam-A via hmmscan --cut_ga — E1-E2_ATPase (PF00122.26), Hydrolase (PF00702.33), Hydrolase_3 (PF08282.19)
- 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 P9WPT1 (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 —
49 functional partner(s); context anchor
echA6 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000962|Rv0908|ctpE MTRSASATAGLTDAEVAQRVAEGKSNDIPERVTRTVGQIVRANVFTRINAILGVLLLIVLATGSLINGMFGLLIIANSVIGMVQEIRAKQTLDKLAIIGQAKPLVRRQSGTRTRSTNEVVLDDIIELGPGDQVVVDGEVVEEENLEIDESLLTGEADPIAKDAGDTVMSGSFVVSGAGAYRATKVGSEAYAAKLAAEASKFTLVKSELRNGINRILQFITYLLVPAGLLTIYTQLFTTHVGWRESVLRMVGALVPMVPEGLVLMTSIAFAVGVVRLGQRQCLVQELPAIEGLARVDVVCADKTGTLTESGMRVCEVEELDGAGRQESVADVLAALAAADARPNASMQAIAEAFHSPPGWVVAANAPFKSATKWSGVSFRDHGNWVIGAPDVLLDPASVAARQAERIGAQGLRVLLLAAGSVAVDHAQAPGQVTPVALVVLEQKVRPDARETLDYFAVQNVSVKVISGDNAVSVGAVADRLGLHGEAMDARALPTGREELADTLDSYTSFGRVRPDQKRAIVHALQSHGHTVAMTGDGVNDVLALKDADIGVAMGSGSPASRAVAQIVLLNNRFATLPHVVGEGRRVIGNIERVANLFLTKTVYSVLLALLVGIECLIAIPLRRDPLLFPFQPIHVTIAAWFTIGIPAFILSLAPNNERAYPGFVRRVMTSAVPFGLVIGVATFVTYLAAYQGRYASWQEQEQASTAALITLLMTALWVLAVIARPYQWWRLALVLASGLAYVVIFSLPLAREKFLLDASNLATTSIALAVGVVGAATIEAMWWIRSRMLGVKPRVWR