Rv3077 Resolved · high auto-curated
H37Rv Rv3077 · MTBC0 - ·
603 aa · 3439541–3441352 (+) ·
RefSeq YP_177923.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hydrolase |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Hydrolase. Pfam: Sulfatase (PF00884.29). |
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 |
Q6MX15
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Possible hydrolase |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
P Inorganic ion transport and metabolism
|
|---|---|
| eggNOG description | sulfatase |
| Orthologous group | COG3119 |
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 | 0.463 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 4 missense, 0 nonsense, 1 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.26% of strains (378) · 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 |
|---|---|---|---|---|
Sulfatase | PF00884.29 | 4.8e-48 | 5–389 | Sulfatase |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: hab (hydroxylaminobenzene mutase), high confidence from genomic context alone (score 785 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0712 hyp |
hypothetical protein | 981 | 982 | experimental:973 |
Rv3076 hyp |
hypothetical protein | 790 | 790 ctx | neighborhood:783 |
Rv3078 hab |
hydroxylaminobenzene mutase | 786 | 785 ctx | neighborhood:773 |
Rv0342 iniA |
isoniazid inductible protein IniA | 634 | 635 | database:517 |
Rv1213 glgC |
glucose-1-phosphate adenylyltransferase | 608 | 603 | coexpression:603 |
Rv3903c cpnT hyp |
hypothetical protein | 589 | 590 ctx | cooccurence:584 |
Rv1775 hyp |
hypothetical protein | 579 | 579 ctx | cooccurence:579 |
Rv1714 |
oxidoreductase | 569 | 562 | coexpression:403 |
Rv0296c |
sulfatase | 559 | 559 ctx | cooccurence:552 |
Rv0538 |
membrane protein | 570 | 555 ctx | cooccurence:552 |
Rv3788 hyp |
hypothetical protein | 548 | 549 ctx | cooccurence:527 |
Rv3075c hyp |
hypothetical protein | 545 | 545 ctx | neighborhood:545 |
Rv1973 |
Mce associated membrane protein | 559 | 543 | |
Rv2264c hyp |
hypothetical protein | 548 | 526 | |
Rv0493c hyp |
hypothetical protein | 522 | 522 ctx | cooccurence:519 |
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): hydrolase
- Pfam (hmmscan --cut_ga): Sulfatase PF00884.29 (E=5e-48)
- (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 YP_177923.1)
- 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 Q6MX15 (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 —
80 functional partner(s); context anchor
hab - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv3077| MANRPDIIIVMTDEERAVPPYESAEVLAWRQRSLTGRRWFDEHGISFTRHYTGSLACVPSRPTIFTGQYPDLHGVTQTDGIGKRFDDSRLRWLRAGEVPTLGNWFRAAGYDTHYDGKWHISHADLEDPATGAPLATNDNEGVVDSAAVRRYLDADPLGPYGFSGWVGPEPHGAGLANSGFRRDPLVADRVVAWLTERYARRRAGDTAAMRPFLLVASFVNPHDIVLFPAWVWRSPLKPSPLDPPHVPAAPTADEDLSTKPAAQVAYREAYYSGYGLTRMVSRNYARNAQRYRDLYYRLHAEVDGPIDRVGRAVTEGGSEDAMLVRTSDHGDLLGAHGGLHQKWFNLYDEATRVPFVIARIGEKATQPRTVSAPTSHVDLVPTLLSAAGVDVDVVAAALAESFSEVHPLPGRDLMPVVDGASADEGRAIYLMTRDNVLEGDTGASLLSRQLGRIVNPPAPLRIKVPAHVAANFEGLVVRVDDTDAAGGAGHLWKLVRTFDDPATWTEPGVRHLATNGMGGDAYRTDPLDDQWELYDLTADPIEAYNRWTDPQLHELRQHLRMLLKQQRAVSVPERNQPWPYAHRLPPSGASNGLVRRVLGRFVR