lipG Resolved · high auto-curated
H37Rv Rv0646c · MTBC0 mtbc0_000684 ·
301 aa · 743787–744692 (-) ·
RefSeq NP_215160.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | lipase/esterase LipG |
|---|---|
| MTBC0 PGAP re-annotation | lipase/esterase LipG |
| Revised (this work) | Lipase/esterase LipG. Pfam: Abhydrolase_1 (PF00561.27), Hydrolase_4 (PF12146.16), Abhydrolase_6 (PF12697.14). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P96935
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable lipase/esterase LipG |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
I Lipid transport and metabolism
|
|---|---|
| Preferred name | lipG |
| eggNOG description | Alpha beta hydrolase |
| Orthologous group | COG2267 |
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 | 0.523 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 synonymous, 3 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 |
|---|---|---|---|---|
Abhydrolase_1 | PF00561.27 | 9.6e-23 | 26–280 | alpha/beta hydrolase fold |
Hydrolase_4 | PF12146.16 | 4.9e-12 | 29–281 | Serine aminopeptidase, S33 |
Abhydrolase_6 | PF12697.14 | 1.4e-13 | 33–283 | Alpha/beta hydrolase family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: mmaA1 (mycolic acid methyltransferase MmaA1), medium confidence from genomic context alone (score 681 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0647c hyp |
hypothetical protein | 996 | 965 ctx | neighborhood:876 coexpression:733 textmining:907 |
Rv0645c mmaA1 |
mycolic acid methyltransferase MmaA1 | 848 | 681 ctx | neighborhood:675 textmining:543 |
Rv0648 |
alpha-mannosidase | 615 | 615 ctx | neighborhood:552 |
Rv0650 |
sugar kinase | 538 | 538 ctx | neighborhood:538 |
Rv0649 fabD2 |
malonyl CoA-acyl carrier protein transacylase | 537 | 537 ctx | neighborhood:537 |
Rv0221 |
diacyglycerol O-acyltransferase | 516 | 517 ctx | cooccurence:512 |
Rv2940c mas |
multifunctional mycocerosic acid synthase | 535 | 507 | experimental:441 |
Rv2048c pks12 |
polyketide synthase | 533 | 506 | experimental:441 |
Rv2933 ppsC |
phthiocerol synthesis polyketide synthase type I PpsC | 531 | 503 | experimental:441 |
Rv3088 tgs4 |
diacyglycerol O-acyltransferase | 503 | 503 ctx | cooccurence:503 |
Rv1527c pks5 |
polyketide synthase | 529 | 501 | experimental:441 |
Rv3825c pks2 |
phthioceranic/hydroxyphthioceranic acid synthase | 527 | 500 | experimental:441 |
Rv2285 |
diacylglycerol acyltransferase | 491 | 491 ctx | cooccurence:491 |
Rv3480c |
diacyglycerol O-acyltransferase | 485 | 485 ctx | cooccurence:485 |
Rv2946c pks1 |
polyketide synthase | 500 | 470 |
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: lipase/esterase LipG
- MTBC0 PGAP product: lipase/esterase LipG
- Pfam (hmmscan --cut_ga): Abhydrolase_1 PF00561.27 (E=1e-22), Hydrolase_4 PF12146.16 (E=5e-12), Abhydrolase_6 PF12697.14 (E=1e-13)
- (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_215160.1)
- Domains: Pfam-A via hmmscan --cut_ga — Abhydrolase_1 (PF00561.27), Hydrolase_4 (PF12146.16), Abhydrolase_6 (PF12697.14)
- 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
COG2267 - Curated reference: UniProt P96935 (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 —
40 functional partner(s); context anchor
mmaA1 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000684|Rv0646c|lipG MDIRSGTAVSGDVKLYYEDMGDLDHPPVLLIMGLGAQMLLWRTDFCARLVAKGLRVIRYDNRDVGLSTKTERHRPGQPLATRLVRSWLGLPSQAAYTLEDMAADAAALLDHLDVKHAHVVGASMGGMIAQIFAARFAQRTKTLAVIFSSNNHRFLPPPAPRALLALLTGPPPDSPRDVIVDNAVRVSKIIGSPAYPIPEDQVRAEAAESYDRNFHPWGIAQQFSAILGSGSLLRYDRRIVAPTVVIHGRADKLMRPFGGRAVARAINGARLVLIDGMGHDLPRQLWDRVIGELTRNFSEAG