Rv3529c Resolved · high auto-curated
H37Rv Rv3529c · MTBC0 mtbc0_003746 ·
384 aa · 3989561–3990715 (-) ·
RefSeq NP_218046.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | TLR2-mediated response inhibitor |
| Revised (this work) | TLR2-mediated response inhibitor. Pfam: Sulfotransfer_1 (PF00685.34), Sulfotransfer_3 (PF13469.13). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
I6YCC4
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Sulfotransferase |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | Sulfotransferase domain |
| Orthologous group | 2DBBP |
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) pseudogene candidate
| pN/pS | 0.275 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 7 synonymous, 4 missense, 2 nonsense, 0 frameshift |
| Disruption | 2 distinct premature-stop/frameshift site(s); most common in 5.93% of strains (8612) · clonal |
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 |
|---|---|---|---|---|
Sulfotransfer_1 | PF00685.34 | 5.7e-06 | 92–352 | Sulfotransferase domain |
Sulfotransfer_3 | PF13469.13 | 5.9e-65 | 93–341 | Sulfotransferase family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv3530c (oxidoreductase), high confidence from genomic context alone (score 996 excluding text-mining). This association is the citable seed of a function hypothesis for this hypothetical protein.
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3530c |
oxidoreductase | 996 | 996 ctx | neighborhood:881 fusion:487 cooccurence:630 coexpression:826 |
Rv3531c hyp |
hypothetical protein | 975 | 975 ctx | neighborhood:881 cooccurence:774 |
Rv2299c htpG |
chaperone protein HtpG | 932 | 926 | experimental:786 database:631 |
Rv2555c alaS |
alanine--tRNA ligase | 925 | 920 | experimental:775 database:644 |
Rv3457c rpoA |
DNA-directed RNA polymerase subunit alpha | 877 | 870 | experimental:668 database:607 |
Rv0696 mftF |
mycofactocin biosynthesis glycosyltransferase MftF | 824 | 805 | experimental:788 |
Rv1390 rpoZ |
DNA-directed RNA polymerase subunit omega | 804 | 805 | experimental:515 database:594 |
Rv3492c |
Mce associated protein | 809 | 801 | experimental:417 database:540 |
Rv3526 kshA |
3-ketosteroid-9-alpha-monooxygenase oxygenase subunit | 797 | 798 ctx | cooccurence:765 |
Rv0667 rpoB |
DNA-directed RNA polymerase subunit beta | 810 | 790 | experimental:476 database:592 |
Rv2919c glnB |
nitrogen regulatory protein P-II | 807 | 789 | experimental:787 |
Rv0310c hyp |
hypothetical protein | 800 | 785 ctx | cooccurence:756 |
Rv2264c hyp |
hypothetical protein | 783 | 772 | experimental:455 database:567 |
Rv3446c hyp |
hypothetical protein | 782 | 770 | experimental:455 database:567 |
Rv0312 hyp |
hypothetical protein | 781 | 769 | experimental:455 database:567 |
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: hypothetical protein
- MTBC0 PGAP product: TLR2-mediated response inhibitor
- Pfam (hmmscan --cut_ga): Sulfotransfer_1 PF00685.34 (E=6e-06), Sulfotransfer_3 PF13469.13 (E=6e-65)
- (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_218046.1)
- Domains: Pfam-A via hmmscan --cut_ga — Sulfotransfer_1 (PF00685.34), Sulfotransfer_3 (PF13469.13)
- 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
2DBBP - Curated reference: UniProt I6YCC4 (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 —
151 functional partner(s); context anchor
Rv3530c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_003746|Rv3529c| MTRRPDRKDVATVDELHASATKLVGLDDFGTDDDNYREALGVLLDAYQGEAGLTVLGSKMNRFFLRGALVARLLSQSAWKQYPEHVDVAIKRPIFVTGLVRTGTTALHRLLGADPAHQGLHMWLAEYPQPRPPRETWESNPLYRQLDAQFTQHHAENPGYTGLHFMAAYELEECWQLLRQSLHSVSYEALAHVPSYADWLSRQDWTPSYCRHRRNLQLIGLNDAEKRWVLKNPSHLFALDALMATYPDALVVQTHRPVETIMASMCSLAQHTTEGWSTKFVGAQIGADAMDTWSRGLERFNAARAKYDSAQFYDVDYHDLIADPLGTVADIYRHFGLTLSDEARQAMTTVHAESQSGARAPKHSYSLADYGLTVEMVKERFAGL