Rv1410c Resolved · high auto-curated
H37Rv Rv1410c · MTBC0 mtbc0_001511 ·
518 aa · 1595554–1597110 (-) ·
RefSeq NP_215926.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | aminoglycosides/tetracycline-transport integral membrane protein |
|---|---|
| MTBC0 PGAP re-annotation | aminoglycoside/tetracycline transporter |
| Revised (this work) | Aminoglycoside/tetracycline transporter. Pfam: MFS_1 (PF07690.22), TRI12 (PF06609.19), Sugar_tr (PF00083.31). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WJY3
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Triacylglyceride transporter Rv1410c |
| Curated function | In association with lipoprotein LprG transports triacylglycerides (TAG) across the inner cell membrane into the periplasm; TAG probably regulates lipid metabolism and growth regulation and plays a structural role in the outer membrane. Mutagenesis and molecular modeling suggests TAG (and maybe other lipids) enters the central cavity of the P55 transporter from within the cell inner membrane via clefts on the cytoplasmic face of P55 between TM5-TM8 and TM2-TM11 (Probable). From there the lipid is probably transferred to the hydrophobic cavity of LprG (Probable). Confers resistance to ethidium b. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
E Amino acid transport and metabolismG Carbohydrate transport and metabolismP Inorganic ion transport and metabolism
|
|---|---|
| eggNOG description | Major facilitator superfamily |
| Orthologous group | COG0477 |
| Gene Ontology (26) |
GO:0003674, GO:0005215, GO:0005488, GO:0005575, GO:0005623, GO:0005886, GO:0005887, GO:0006810, GO:0008144, GO:0008150, GO:0009405, GO:0015562 +14 more
|
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 | 0.305 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 6 synonymous, 5 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 |
|---|---|---|---|---|
MFS_1 | PF07690.22 | 4.6e-39 | 14–424 | Major Facilitator Superfamily |
TRI12 | PF06609.19 | 1.4e-07 | 15–190 | Fungal trichothecene efflux pump (TRI12) |
Sugar_tr | PF00083.31 | 5.5e-10 | 45–185 | Sugar (and other) transporter |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: lprG (lipoprotein LprG), high confidence from genomic context alone (score 972 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1411c lprG |
lipoprotein LprG | 989 | 972 ctx | neighborhood:881 cooccurence:701 textmining:657 |
Rv1412 ribC |
riboflavin synthase | 893 | 805 ctx | neighborhood:783 textmining:474 |
Rv1416 ribH |
6,7-dimethyl-8-ribityllumazine synthase | 675 | 664 ctx | neighborhood:645 |
Rv1417 |
membrane protein | 650 | 650 ctx | neighborhood:645 |
Rv1368 lprF |
lipoprotein LprF | 482 | 450 ctx | cooccurence:411 |
Rv2945c lppX |
lipoprotein LppX | 595 | 427 ctx | cooccurence:423 |
Rv0517 |
acyltransferase | 412 | 412 ctx | cooccurence:403 |
Rv1415 ribA2 |
bifunctional riboflavin biosynthesis GTP cyclohydrolase II/3,4-dihydroxy-2-butanone 4-phosphate synthase | 508 | 409 | |
Rv2333c stp |
multidrug resistance protein | 446 | 345 | |
Rv1902c nanT |
sialic acid-transport integral membrane protein NanT | 411 | 159 | |
Rv2564 glnQ |
glutamine ABC transporter ATP-binding protein | 587 | 71 | textmining:574 |
Rv1258c tap |
multidrug-efflux transporter | 470 | 46 | textmining:467 |
Rv1946c lppG |
lipoprotein | 431 | 41 | textmining:431 |
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: aminoglycosides/tetracycline-transport integral membrane protein
- MTBC0 PGAP product: aminoglycoside/tetracycline transporter
- Pfam (hmmscan --cut_ga): MFS_1 PF07690.22 (E=5e-39), TRI12 PF06609.19 (E=1e-07), Sugar_tr PF00083.31 (E=5e-10)
- (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_215926.1)
- Domains: Pfam-A via hmmscan --cut_ga — MFS_1 (PF07690.22), TRI12 (PF06609.19), Sugar_tr (PF00083.31)
- 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
COG0477 - Curated reference: UniProt P9WJY3 (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 —
13 functional partner(s); context anchor
lprG - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001511|Rv1410c| MRAGRRVAISAGSLAVLLGALDTYVVVTIMRDIMNSVGIPINQLHRITWIVTMYLLGYIAAMPLLGRASDRFGRKLMLQVSLAGFIIGSVVTALAGHFGDFHMLIAGRTIQGVASGALLPITLALGADLWSQRNRAGVLGGIGAAQELGSVLGPLYGIFIVWLLHDWRDVFWINVPLTAIAMVMIHFSLPSHDRSTEPERVDLVGGLLLALALGLAVIGLYNPNPDGKHVLPDYGAPLLVGALVAAVAFFGWERFARTRLIDPAGVHFRPFLSALGASVAAGAALMVTLVDVELFGQGVLQMDQAQAAGMLLWFLIALPIGAVTGGWIATRAGDRAVAFAGLLIAAYGYWLISHWPVDLLADRHNILGLFTVPAMHTDLVVAGLGLGLVIGPLSSATLRVVPSAQHGIASAAVVVARMTGMLIGVAALSAWGLYRFNQILAGLSAAIPPNASLLERAAAIGARYQQAFALMYGEIFTITAIVCVFGAVLGLLISGRKEHADEPEVQEQPTLAPQVEPL