Rv1075c Family assigned · medium auto-curated
H37Rv Rv1075c · MTBC0 mtbc0_001155 ·
314 aa · 1207695–1208639 (-) ·
RefSeq NP_215591.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | SGNH/GDSL hydrolase family protein |
| Revised (this work) | SGNH/GDSL hydrolase family protein. Pfam: Lipase_GDSL (PF00657.29), Lipase_GDSL_2 (PF13472.13). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O53423
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | GDSL-like esterase Rv1075c |
| EC (curated) |
EC 3.1.-.-, EC 3.1.1.6
|
| Curated function | Esterase that preferentially hydrolyzes short-chain fatty acids, particularly pNP-acetate (C2) and pNP-butyrate (C4). Also has weak activity with pNP-hexanoate (C6) and pNP-octanoate (C8). It can also hydrolyze short-chain tryglycerides such as triacetin and tributyrin. Important for intracellular survival. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
E Amino acid transport and metabolism
|
|---|---|
| eggNOG description | GDSL-like Lipase/Acylhydrolase family |
| Orthologous group | COG2755 |
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 | 0.593 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 4 synonymous, 6 missense, 0 nonsense, 1 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.60% of strains (873) · 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 |
|---|---|---|---|---|
Lipase_GDSL | PF00657.29 | 2.2e-10 | 74–259 | GDSL-like Lipase/Acylhydrolase |
Lipase_GDSL_2 | PF13472.13 | 2.6e-19 | 76–255 | GDSL-like Lipase/Acylhydrolase family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: fadA3 (beta-ketoacyl CoA thiolase FadA), high confidence from genomic context alone (score 812 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) |
|---|---|---|---|---|
Rv1074c fadA3 |
beta-ketoacyl CoA thiolase FadA | 935 | 812 ctx | neighborhood:811 textmining:670 |
Rv0048c |
membrane protein | 715 | 716 ctx | cooccurence:649 |
Rv1076 lipU |
lipase LipU | 718 | 706 ctx | neighborhood:614 |
Rv0756c hyp |
hypothetical protein | 571 | 551 | experimental:425 |
Rv3662c hyp |
hypothetical protein | 534 | 534 ctx | cooccurence:521 |
Rv1171 hyp |
hypothetical protein | 511 | 512 ctx | cooccurence:510 |
Rv1950c hyp |
hypothetical protein | 500 | 476 | experimental:425 |
Rv0909 |
antitoxin | 498 | 474 | experimental:425 |
Rv3903c cpnT hyp |
hypothetical protein | 497 | 473 | experimental:425 |
Rv3881c espB |
ESX-1 secretion-associated protein EspB | 496 | 472 | experimental:425 |
Rv3773c hyp |
hypothetical protein | 463 | 463 ctx | cooccurence:463 |
Rv1987 |
chitinase | 493 | 461 | experimental:405 |
Rv3202c adnA |
ATP-dependent DNA helicase | 460 | 461 | |
Rv0822c hyp |
hypothetical protein | 479 | 456 ctx | cooccurence:453 |
Rv0648 |
alpha-mannosidase | 455 | 456 ctx | cooccurence:444 |
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: SGNH/GDSL hydrolase family protein
- Pfam (hmmscan --cut_ga): Lipase_GDSL PF00657.29 (E=2e-10), Lipase_GDSL_2 PF13472.13 (E=3e-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_215591.1)
- Domains: Pfam-A via hmmscan --cut_ga — Lipase_GDSL (PF00657.29), Lipase_GDSL_2 (PF13472.13)
- 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
COG2755 - Curated reference: UniProt O53423 (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 —
38 functional partner(s); context anchor
fadA3 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001155|Rv1075c| MPRRSTIALATAGALASTGTAYLGARNLLVGQATHARTVIPKSFDAPPRADGVYTRGGGPVQRWRREVPFDVHLMIFGDSTATGYGCASAEEVPGVLIARGLAEQTGKRIRLSTKAIVGATSKGVCGQVDAMFVVGPPPDAAVIMIGANDITALNGIGPSAQRLADCVRRLRTRGAVVVVGTCPDLGVITAIPQPLRALAHTRGVRLARAQTAAVKAAGGVPVPLGHLLAPKFRAMPELMFSADRYHPSAPAYALAADLLFLALRDALTEKLDIPIHETPSRPGTATLEPGHTRHSMMSRLRRPRPARAVPTGG