atsD Resolved · high auto-curated
H37Rv Rv0663 · MTBC0 mtbc0_000701 ·
787 aa · 760223–762586 (+) ·
RefSeq NP_215177.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | arylsulfatase AtsD |
|---|---|
| MTBC0 PGAP re-annotation | arylsulfatase AtsD |
| Revised (this work) | Arylsulfatase AtsD. Pfam: Sulfatase (PF00884.29). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
I6XVW9
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Possible arylsulfatase AtsD |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
P Inorganic ion transport and metabolism
|
|---|---|
| Preferred name | atsD |
| eggNOG description | thought to play an important role in the mineralization of sulfates catalytic activity a phenol sulfate H2O a phenol sulfate |
| Orthologous group | COG3119 |
| EC number |
EC 3.1.6.1
|
| KEGG orthology |
K01130
|
| KEGG pathways |
map00140, map00600
|
| Gene Ontology (93) |
GO:0000323, GO:0001775, GO:0002252, GO:0002263, GO:0002274, GO:0002275, GO:0002283, GO:0002366, GO:0002376, GO:0002443, GO:0002444, GO:0002446 +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 | 0.439 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 12 synonymous, 17 missense, 0 nonsense, 4 frameshift |
| Disruption | 4 distinct premature-stop/frameshift site(s); most common in 0.84% of strains (1218) · convergent |
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 |
|---|---|---|---|---|
Sulfatase | PF00884.29 | 2.7e-67 | 43–459 | Sulfatase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: vapC8 (ribonuclease VapC8), high confidence from genomic context alone (score 709 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0712 hyp |
hypothetical protein | 841 | 841 ctx | cooccurence:712 experimental:430 |
Rv0665 vapC8 |
ribonuclease VapC8 | 709 | 709 ctx | neighborhood:700 |
Rv0664 vapB8 |
antitoxin VapB8 | 707 | 708 ctx | neighborhood:700 |
Rv0666 |
membrane protein | 671 | 672 ctx | neighborhood:668 |
Rv1213 glgC |
glucose-1-phosphate adenylyltransferase | 606 | 602 | coexpression:602 |
Rv0661c vapC7 |
ribonuclease VapC7 | 542 | 543 ctx | neighborhood:540 |
Rv0662c vapB7 |
antitoxin VapB7 | 541 | 541 ctx | neighborhood:540 |
Rv0342 iniA |
isoniazid inductible protein IniA | 520 | 520 | database:517 |
Rv0296c |
sulfatase | 517 | 518 ctx | cooccurence:515 |
Rv2940c mas |
multifunctional mycocerosic acid synthase | 531 | 501 | coexpression:410 |
Rv2933 ppsC |
phthiocerol synthesis polyketide synthase type I PpsC | 528 | 499 | coexpression:407 |
Rv1527c pks5 |
polyketide synthase | 527 | 497 | coexpression:405 |
Rv2048c pks12 |
polyketide synthase | 525 | 495 | coexpression:403 |
Rv1663 pks17 |
polyketide synthase | 513 | 495 | coexpression:410 |
Rv3825c pks2 |
phthioceranic/hydroxyphthioceranic acid synthase | 524 | 494 | coexpression:402 |
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: arylsulfatase AtsD
- MTBC0 PGAP product: arylsulfatase AtsD
- Pfam (hmmscan --cut_ga): Sulfatase PF00884.29 (E=3e-67)
- (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_215177.1)
- Domains: Pfam-A via hmmscan --cut_ga — Sulfatase (PF00884.29)
- 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
COG3119 - Curated reference: UniProt I6XVW9 (TrEMBL, unreviewed; 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 —
72 functional partner(s); context anchor
vapC8 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000701|Rv0663|atsD MPQPRTHLPIPSAARTGLITYDAKDPDSTYPPIEQLRPPAGAPNVLLILLDDVGFGASSAFGGPCRTSTAELLAGNGLRYNRFHTTALCSPTRQALLTGRNHHSAGMGGITEIATGAPGYSSVLPNTMSPIARTLKLNGYNTAQFGKCHEVPVWQTSPVGPFDAWPSGGGGFEYFYGFIGGEANQWYPSLYEGTTPVEVNRTPEEGYHFMADMTDKALGWIGQQKALAPDRPFFVYFAPGATHAPHHVPREWADKYRGRFDVGWDALREETFARQKELGVIPADCQLTARHAEIPAWDDMPEDLKPVLCRQMEVYAGFLEYTDHHVGRLVDGLQRLGVLDDTLVFYIIGDNGASAEGTINGTYNEMLNFNGLADIETPRFMTDRLDKFGGPESYNHYSVGWAHAMDTPYQWTKQVASHWGGTRNGTIVHWPNGIAAKGEMRWQFHHVIDVAPTILEAAGLPEPLFVNGVQQHPIEGVSMAYSFDDAQAPDRHETQYFEMFGNRGIYHKGWTAVTKHKTPWILVGEQTVAFDDDVWELYDTTKDWSQAKDLAKEMPEKLHELQRLWLIEATRYNVLPLDDDTASRINPDLAGRPVLIRGNTQVLFSNMGRLSENCVLNLKNKSHTVTAEVEVPETGAEGVIVAQGASIGGWSLYANDGKLKYCYNLGGIKHFYAESADPLPAGAHQVRMEFAYAGGGLGKGGEVTLYVDGQQVGEGHVEATLAIVFSADDGCDVGMDSGSPVSPDYAPGSNAFNGRIKGVQLAIAEAAAAAGHLVDPEHAIRIALARQ