Rv0986 Family assigned · medium auto-curated
H37Rv Rv0986 · MTBC0 mtbc0_001057 ·
248 aa · 1109139–1109885 (+) ·
RefSeq NP_215501.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | adhesion component ABC transporter ATP-binding protein |
|---|---|
| MTBC0 PGAP re-annotation | ABC transporter ATP-binding protein |
| Revised (this work) | ABC transporter ATP-binding protein. Pfam: ABC_tran (PF00005.34). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WQK1
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized ABC transporter ATP-binding protein Rv0986 |
| 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. |
UniProt still lists this protein as Uncharacterized ABC transporter ATP-binding protein Rv0986; 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 transporter |
| Orthologous group | COG1136 |
| KEGG orthology |
K02003, K02004
|
| KEGG modules |
M00258
|
| Gene Ontology (16) |
GO:0008150, GO:0009405, GO:0009605, GO:0009607, GO:0043207, GO:0044403, GO:0044419, GO:0050896, GO:0051701, GO:0051704, GO:0051707, GO:0052173 +4 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) pseudogene candidate
| pN/pS | 0.201 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 8 synonymous, 5 missense, 0 nonsense, 2 frameshift |
| Disruption | 2 distinct premature-stop/frameshift site(s); most common in 2.27% of strains (3299) · clonal |
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 |
|---|---|---|---|---|
ABC_tran | PF00005.34 | 1.0e-36 | 26–174 | ABC transporter |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0987 (adhesion component ABC transporter permease), high confidence from genomic context alone (score 926 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0987 |
adhesion component ABC transporter permease | 935 | 926 ctx | neighborhood:833 coexpression:428 |
Rv0072 |
glutamine ABC transporter permease | 882 | 875 | coexpression:440 experimental:773 |
Rv2563 |
glutamine ABC transporter permease | 882 | 875 | coexpression:442 experimental:773 |
Rv0988 hyp |
hypothetical protein | 870 | 862 ctx | neighborhood:833 |
Rv3419c gcp |
O-sialoglycoprotein endopeptidase | 617 | 617 ctx | cooccurence:592 |
Rv3000 |
transmembrane protein | 615 | 616 ctx | cooccurence:572 |
Rv3459c rpsK |
30S ribosomal protein S11 | 626 | 589 ctx | cooccurence:577 |
Rv0721 rpsE |
30S ribosomal protein S5 | 604 | 579 ctx | cooccurence:574 |
Rv1702c hyp |
hypothetical protein | 599 | 579 | |
Rv1945 hyp |
hypothetical protein | 598 | 578 | |
Rv3653 PE_PGRS61 |
PE-PGRS family-related protein PE_PGRS61 | 598 | 578 | |
Rv0397 hyp |
hypothetical protein | 598 | 578 | |
Rv0297 PE_PGRS5 |
PE-PGRS family protein PE_PGRS5 | 598 | 578 | |
Rv0393 hyp |
hypothetical protein | 598 | 578 | |
Rv3580c cysS1 |
cysteine--tRNA ligase | 576 | 577 ctx | cooccurence:568 |
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 ATP-binding protein
- MTBC0 PGAP product: ABC transporter ATP-binding protein
- Pfam (hmmscan --cut_ga): ABC_tran PF00005.34 (E=1e-36)
- (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_215501.1)
- Domains: Pfam-A via hmmscan --cut_ga — ABC_tran (PF00005.34)
- 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
COG1136 - Curated reference: UniProt P9WQK1 (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 —
41 functional partner(s); context anchor
Rv0987 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001057|Rv0986| MNRQPIVQLSNLSWTFREGETRRQVLDHITFDFEPGEFVALLGQSGSGKSTLLNLISGIEKPTTGDVTINGFAITQKTERDRTLFRRDQIGIVFQFFNLIPTLTVLENITLPQELAGVSQRKAAVVARDLLEKVGMADRERTFPDKLSGGEQQRVAISRALAHNPMLVLADEPTGNLDSDTGDKVLDVLLDLTRQAGKTLIMATHSPSMTQHADRVVNLQGGRLIPAVNRENQTDQPASTILLPTSYE