Rv0987 Family assigned · medium auto-curated
H37Rv Rv0987 · MTBC0 mtbc0_001058 ·
855 aa · 1109878–1112445 (+) ·
RefSeq NP_215502.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | adhesion component 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 |
O53900
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized ABC transporter permease protein Rv0987 |
| Curated function | Probably part of an ABC transporter complex involved in host cell binding either through secretion of an adherence factor or through maintaining the architecture and integrity of the mycobacterial cell envelope. Could be required for host endothelial-cell invasion and/or intracellular survival. |
UniProt still lists this protein as Uncharacterized ABC transporter permease protein Rv0987; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
V Defense mechanisms
|
|---|---|
| eggNOG description | ABC-type transport system, involved in lipoprotein release, permease component |
| Orthologous group | COG0577 |
| KEGG orthology |
K02004
|
| KEGG modules |
M00258
|
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 | 0.445 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 18 synonymous, 22 missense, 2 nonsense, 2 frameshift |
| Disruption | 4 distinct premature-stop/frameshift site(s); most common in 5.15% of strains (7481) · convergent |
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 | 1.6e-13 | 28–234 | MacB-like periplasmic core domain |
FtsX | PF02687.28 | 1.2e-18 | 264–386 | FtsX-like permease C-terminal |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0986 (adhesion component ABC transporter ATP-binding protein), high confidence from genomic context alone (score 926 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0988 hyp |
hypothetical protein | 999 | 998 ctx | neighborhood:866 fusion:660 cooccurence:774 coexpression:836 textmining:510 |
Rv0986 |
adhesion component ABC transporter ATP-binding protein | 935 | 926 ctx | neighborhood:833 coexpression:428 |
Rv0384c clpB |
chaperone protein ClpB | 765 | 766 | coexpression:765 |
Rv2338c moeW |
molybdopterin biosynthesis protein MoeW | 410 | 411 | |
Rv0985c mscL |
large-conductance ion mechanosensitive channel | 405 | 406 ctx | neighborhood:400 |
Rv2564 glnQ |
glutamine ABC transporter ATP-binding protein | 419 | 334 | |
Rv0073 |
glutamine ABC transporter ATP-binding protein | 414 | 328 | |
Rv0980c PE_PGRS18 |
PE-PGRS family protein PE_PGRS18 | 412 | 160 | |
Rv1500 pimF |
glycosyltransferase | 457 | 83 | textmining:433 |
Rv1115 hyp |
hypothetical protein | 514 | 50 | textmining:510 |
Rv0294 tam |
trans-aconitate methyltransferase | 652 | 46 | textmining:651 |
Rv3447c eccC4 |
ESX-4 secretion system protein EccC4 | 630 | 41 | textmining:630 |
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: adhesion component ABC transporter permease
- MTBC0 PGAP product: FtsX-like permease family protein
- Pfam (hmmscan --cut_ga): MacB_PCD PF12704.15 (E=2e-13), FtsX PF02687.28 (E=1e-18)
- (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_215502.1)
- 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 O53900 (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 —
12 functional partner(s); context anchor
Rv0986 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001058|Rv0987| MNDQAPVAYAPLWRTAWRRLRQRPFQYILLVLGIALGVAMIVAIDVSSNSAQRAFDLSAAAITGKSTHRLVSGPAGVDQQLYVDLRRHGYDFSAPVIEGYVLARGLGNRAMQFMGTDPFAESAFRSPLWSNQNIAELGGFLTRPNGVVLSRQVAQKYGLAVGDRIALQVKGAPTTVTLVGLLTPADEVSNQKLSDLIIADISTAQELFHMPGRLSHIDLIIKDEATATRIQQRLPAGVRMETSDTQRDTVKQMTDAFTVNLTALSLIALLVGIFLIYNTVTFNVVQRRPFFAILRCLGVTREQLFWLIMTESLVAGLIGTGLGLLIGIWLGEGLIGLVTQTINDFYFVINVRNVSVSAESLLKGLIIGIFAAMLATLPPAIEAMRTVPASTLRRSSLESKITKLMPWLWVAWFGLGSFGVLMLWLPGNNLVVAFVGLFSVLIALALIAPPLTRFVMLRLAPGLGRLLGPIGRMAPRNIVRSLSRTSIAIAALMMAVSLMVGVSISVGSFRQTLANWLEVTLKSDVYVSPPTLTSGRPSGNLPVDAVRNISKWPGVRDAVMARYSSVFAPDWGREVELMAVSGDISDGKRPYRWIDGNKDTLWPRFLAGKGVMLSEPMVSRQHLQMPPRPITLMTDSGPQTFPVLAVFSDYTSDQGVILMDRASYRAHWQDDDVTTMFLFLASGANSGALIDQLQAAFAGREDIVIQSTHSVREASMVIFDRSFTITIALQLVATVVAFIGVLSALMSLELDRAHELGVFRAIGMTTRQLWKLMFIETGLMGGMAGLMALPTGCILAWILVRIINVRSFGWTLQMHFESAHFLRALLVAVVAALAAGMYPAWRLGRMTIRTAIREE