Rv0072 Family assigned · medium auto-curated
H37Rv Rv0072 · MTBC0 mtbc0_000080 ·
349 aa · 80787–81836 (+) ·
RefSeq NP_214586.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | glutamine ABC transporter permease |
|---|---|
| MTBC0 PGAP re-annotation | FtsX-like permease family protein |
| Revised (this work) | FtsX-like permease family protein. Pfam: MacB_PCD (PF12704.15), FtsX (PF02687.28). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WG17
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized ABC transporter permease Rv0072 |
| Curated function | Probably part of an ABC transporter complex. Probably responsible for the translocation of the substrate across the membrane (By similarity). |
UniProt still lists this protein as Uncharacterized ABC transporter permease Rv0072; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
V Defense mechanisms
|
|---|---|
| eggNOG description | FtsX-like permease family |
| Orthologous group | COG0577 |
| KEGG orthology |
K02004
|
| KEGG modules |
M00258
|
| Gene Ontology (17) |
GO:0005575, GO:0005576, GO:0005623, GO:0005886, GO:0005887, GO:0008150, GO:0009405, GO:0016020, GO:0016021, GO:0031224, GO:0031226, GO:0044419 +5 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 | 0.375 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 2 synonymous, 2 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 |
|---|---|---|---|---|
MacB_PCD | PF12704.15 | 2.1e-10 | 18–184 | MacB-like periplasmic core domain |
FtsX | PF02687.28 | 4.1e-14 | 233–341 | FtsX-like permease C-terminal |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0073 (glutamine ABC transporter ATP-binding protein), high confidence from genomic context alone (score 1000 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0073 |
glutamine ABC transporter ATP-binding protein | 999 | 1000 ctx | neighborhood:882 cooccurence:423 coexpression:885 experimental:773 database:900 |
Rv2564 glnQ |
glutamine ABC transporter ATP-binding protein | 933 | 928 ctx | cooccurence:430 coexpression:447 experimental:773 |
Rv0986 |
adhesion component ABC transporter ATP-binding protein | 882 | 875 | coexpression:440 experimental:773 |
Rv1157c hyp |
hypothetical protein | 664 | 664 ctx | cooccurence:646 |
Rv0074 hyp |
hypothetical protein | 627 | 627 ctx | neighborhood:605 |
Rv0075 |
aminotransferase | 595 | 580 ctx | neighborhood:553 |
Rv3201c adnB |
ATP-dependent DNA helicase | 485 | 485 ctx | cooccurence:483 |
Rv3882c eccE1 |
ESX-1 secretion system protein EccE1 | 469 | 470 ctx | cooccurence:463 |
Rv2004c hyp |
hypothetical protein | 461 | 424 ctx | cooccurence:403 |
Rv3365c hyp |
hypothetical protein | 427 | 404 | |
Rv1078 pra hyp |
hypothetical protein | 482 | 335 | |
Rv2942 mmpL7 |
transmembrane transport protein MmpL7 | 585 | 186 | textmining:511 |
Rv2819c csm5 |
CRISPR type III-associated RAMP protein Csm5 | 505 | 157 | textmining:438 |
Rv1536 ileS |
isoleucine--tRNA ligase | 482 | 119 | textmining:437 |
Rv1395 |
HTH-type transcriptional regulator | 650 | 109 | textmining:624 |
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: glutamine ABC transporter permease
- MTBC0 PGAP product: FtsX-like permease family protein
- Pfam (hmmscan --cut_ga): MacB_PCD PF12704.15 (E=2e-10), FtsX PF02687.28 (E=4e-14)
- (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_214586.1)
- Domains: Pfam-A via hmmscan --cut_ga — MacB_PCD (PF12704.15), FtsX (PF02687.28)
- 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
COG0577 - Curated reference: UniProt P9WG17 (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 —
29 functional partner(s); context anchor
Rv0073 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000080|Rv0072| MLFAALRDMQWRKRRLVITIISTGLIFGMTLVLTGLANGFRVEARHTVDSMGVDVFVVRSGAAGPFLGSIPFPDVDLARVAAEPGVMAAAPLGSVGTIMKEGTSTRNVTVFGAPEHGPGMPRVSEGRSPSKPDEVAASSTMGRHLGDTVEVGARRLRVVGIVPNSTALAKIPNVFLTTEGLQKLAYNGQPNITSIGIIGMPRQLPEGYQTFDRVGAVNDLVRPLKVAVNSISIVAVLLWIVAVLIVGSVVYLSALERLRDFAVFKAIGTPTRSIMAGLALQALVIALLAAVVGVVLAQVLAPLFPMIVAVPVGAYLALPVAAIVIGLFASVAGLKRVVTVDPAQAFGGP