cysT Family assigned · medium auto-curated
H37Rv Rv2399c · MTBC0 mtbc0_002554 ·
283 aa · 2720043–2720894 (-) ·
RefSeq NP_216915.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | sulfate ABC transporter permease CysT |
|---|---|
| MTBC0 PGAP re-annotation | sulfate ABC transporter permease subunit CysT |
| Revised (this work) | Sulfate ABC transporter permease subunit CysT. Pfam: BPD_transp_1 (PF00528.28). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P71745
TrEMBL · unreviewed
· Inferred from homology
|
|---|---|
| UniProt name | Sulfate transport system permease protein CysT |
| Curated function | Part of the ABC transporter complex (TC 3.A.1.6.1) involved in sulfate/thiosulfate import..; FUNCTION: Part of the ABC transporter complex CysAWTP (TC 3.A.1.6.1) involved in sulfate/thiosulfate import. Probably responsible for the translocation of the substrate across the membrane. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
O Post-translational modification, protein turnover, chaperones
|
|---|---|
| Preferred name | cysT |
| eggNOG description | sulfate ABC transporter |
| Orthologous group | COG0555 |
| KEGG orthology |
K02046
|
| KEGG pathways |
map00920, map02010
|
| KEGG modules |
M00185
|
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 | 0.382 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 synonymous, 1 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 |
|---|---|---|---|---|
BPD_transp_1 | PF00528.28 | 1.5e-19 | 87–275 | Binding-protein-dependent transport system inner membrane component |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: cysA1 (sulfate ABC transporter ATP-binding protein CysA), high confidence from genomic context alone (score 1000 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2397c cysA1 |
sulfate ABC transporter ATP-binding protein CysA | 999 | 1000 ctx | neighborhood:865 cooccurence:771 coexpression:952 database:900 textmining:885 |
Rv2400c subI |
sulfate ABC transporter substrate-binding lipoprotein SubI | 999 | 1000 ctx | neighborhood:881 cooccurence:774 coexpression:963 database:900 textmining:741 |
Rv1286 cysC |
adenylyl-sulfate kinase | 999 | 1000 | coexpression:999 database:900 textmining:487 |
Rv2398c cysW |
sulfate ABC transporter permease CysW | 999 | 1000 ctx | neighborhood:882 coexpression:976 database:900 |
Rv1285 cysD |
sulfate adenylyltransferase subunit 2 | 974 | 972 | coexpression:675 database:900 |
Rv1857 modA |
molybdate ABC transporter substrate-binding lipoprotein ModA | 969 | 964 ctx | cooccurence:623 experimental:895 |
Rv1859 modC |
molybdenum ABC transporter ATP-binding protein ModC | 830 | 808 | coexpression:725 |
Rv2392 cysH |
phosphoadenosine phosphosulfate reductase | 759 | 730 | coexpression:677 |
Rv2391 sirA |
sulfite reductase | 673 | 630 | coexpression:609 |
Rv2064 cobG |
precorrin-3B synthase | 670 | 626 | coexpression:605 |
Rv2401 hyp |
hypothetical protein | 583 | 582 ctx | neighborhood:578 |
Rv3327 |
transposase fusion protein | 409 | 409 | coexpression:409 |
Rv2429 ahpD |
alkyl hydroperoxide reductase AphD | 406 | 407 | coexpression:407 |
Rv0464c hyp |
hypothetical protein | 406 | 407 | coexpression:407 |
Rv1531 hyp |
hypothetical protein | 403 | 404 | coexpression: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: sulfate ABC transporter permease CysT
- MTBC0 PGAP product: sulfate ABC transporter permease subunit CysT
- Pfam (hmmscan --cut_ga): BPD_transp_1 PF00528.28 (E=1e-19)
- (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_216915.1)
- Domains: Pfam-A via hmmscan --cut_ga — BPD_transp_1 (PF00528.28)
- 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
COG0555 - Curated reference: UniProt P71745 (TrEMBL, unreviewed; 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 —
20 functional partner(s); context anchor
cysA1 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002554|Rv2399c|cysT MTESLVGERRAPQFRARLSGPAGPPSVRVGMAVVWLSVIVLLPLAAIVWQAAGGGWRAFWLAVSSHAAMESFRVTLTISTAVTVINLVFGLLIAWVLVRDDFAGKRIVDAIIDLPFALPTIVASLVMLALYGNNSPVGLHFQHTATGVGVALAFVTLPFVVRAVQPVLLEIDRETEEAAASLGANGAKIFTSVVLPSLTPALLSGAGLAFSRAIGEFGSVVLIGGAVPGKTEVSSQWIRTLIENDDRTGAAAISVVLLSISFIVLLILRVVGARAAKREEMAA