MTBC Gene Atlas

Rv1627c Resolved · high auto-curated

H37Rv Rv1627c · MTBC0 mtbc0_001735 · 402 aa · 1840829–1842037 (-) · RefSeq NP_216143.1

Annotation: from legacy to revised

Legacy (H37Rv / Mycobrowser)nonspecific lipid-transfer protein
MTBC0 PGAP re-annotationlipid-transfer protein
Revised (this work)Lipid-transfer protein. Pfam: Thiolase_N (PF00108.30), ketoacyl-synt (PF00109.33), Thiolase_C_1 (PF22691.3).

Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.

Curated reference (UniProt)

UniProt O06144 TrEMBL · unreviewed · Evidence at protein level
UniProt nameProbable nonspecific lipid-transfer protein

Functional vocabulary (eggNOG-mapper, orthology transfer)

COG category I Lipid transport and metabolism
eggNOG descriptionlipid-transfer protein
Orthologous groupCOG0183

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 0.48 · purifying
Polymorphic sites (≥ 0.1% of strains) 5 synonymous, 7 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)

PfamAccessioni-EvalueResiduesDescription
Thiolase_NPF00108.30 3.9e-109–227 Thiolase, N-terminal domain
ketoacyl-syntPF00109.33 3.9e-0565–117 Beta-ketoacyl synthase, N-terminal domain
Thiolase_C_1PF22691.3 5.2e-31284–400 Thiolase C-terminal domain-like

Functional interaction network (STRING v12, guilt-by-association)

PartnerProductScoreNo text-miningChannels (≥400)
Rv1628c hyp hypothetical protein 994 990 ctx neighborhood:881 cooccurence:765 coexpression:444 experimental:415 textmining:479
Rv0860 fadB fatty oxidation protein FadB 970 966 coexpression:699 experimental:804 database:447
Rv0675 echA5 enoyl-CoA hydratase EchA5 816 808 database:447
Rv2679 echA15 enoyl-CoA hydratase EchA15 788 780 database:447
Rv0632c echA3 enoyl-CoA hydratase EchA3 786 777 database:447
Rv1142c echA10 enoyl-CoA hydratase EchA10 762 751 database:447
Rv0673 echA4 enoyl-CoA hydratase EchA4 761 751 database:447
Rv1472 echA12 enoyl-CoA hydratase EchA12 762 750 database:447
Rv1141c echA11 enoyl-CoA hydratase EchA11 762 750 database:447
Rv3550 echA20 enoyl-CoA hydratase EchA20 760 750 database:447
Rv3774 echA21 enoyl-CoA hydratase EchA21 763 749 database:447
Rv2831 echA16 enoyl-CoA hydratase EchA16 761 749 database:447
Rv3373 echA18 enoyl-CoA hydratase 760 749 database:447
Rv3374 echA18.1 Probable enoyl-CoA hydratase EchA18.1 (Enoyl hydrase) (Unsaturated acyl-CoA hydratase) (Crotonase); Rv3374, (MTV004.32), len: 82 aa. Probabl 760 749 database:447
Rv0905 echA6 enoyl-CoA hydratase EchA6 760 749 database:447

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: nonspecific lipid-transfer protein
  • MTBC0 PGAP product: lipid-transfer protein
  • Pfam (hmmscan --cut_ga): Thiolase_N PF00108.30 (E=4e-10), ketoacyl-synt PF00109.33 (E=4e-05), Thiolase_C_1 PF22691.3 (E=5e-31)
  • (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_216143.1)
  • Domains: Pfam-A via hmmscan --cut_ga — Thiolase_N (PF00108.30), ketoacyl-synt (PF00109.33), Thiolase_C_1 (PF22691.3)
  • 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 COG0183
  • Curated reference: UniProt O06144 (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 — 105 functional partner(s)
  • Primary literature: none located yet; annotation rests on the domain/homology sources above.

Ancestral MTBC0 protein sequence

>mtbc0_001735|Rv1627c|
MRMSAPEPVYILGAGMHPWGKWGNDFTEYGVVAARAALRDAGVDWRHVQLVAGADTIRNGYPGFVAGATFAQKLGWTGVPVSSSYAACASGSQALQSARAQILAGFCDVALVIGADTTPKGFFAPVGGERKGDPDWQRFHLIGATNTVYFALLARRRMDLYGATVEDFAQVKVKNSRHGLDNPNARYRKENSIDDVLASPVVSDPLRLLDICATSDGAAALIVASKSFTEKHLGSVAGVPSVRAISTVTPKYPQHLPELPDIATDSTAAVPAPERVFKDQILDAAYAEAGIGPEDLSLAEVYDLSTALELDWYEHLGLCPKGEAEALLRSGATTLGGRVPVNPSGGLACFGEAIPAQAIAQVCELTWQLRGQATGRQVADAKVGVTANQGLFGHGSSVIVAR