aprB Resolved · medium auto-curated
H37Rv Rv2395B · MTBC0 - ·
54 aa · 2692551–2692715 (+) ·
RefSeq YP_007411092.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | acid and phagosome regulated protein AprB |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Acid and phagosome regulated protein AprB. |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Annotated on the H37Rv protein: this gene has no 1:1 ancestral MTBC0 anchor (PE/PPE, paralogue, IS element, or otherwise unanchored CDS).
Curated reference (UniProt)
| UniProt |
V5QRX2
TrEMBL · unreviewed
· Predicted
|
|---|---|
| UniProt name | Acid and phagosome regulated protein B AprB |
Conservation & selection (intra-MTBC, 145 209 strains)
| pN/pS | n/a |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 0 synonymous, 4 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)
No Pfam-A domain above the gathering threshold (or not yet scanned).
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: PE_PGRS41 (acid and phagosome regulated protein AprC), medium confidence from genomic context alone (score 556 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2396 PE_PGRS41 |
acid and phagosome regulated protein AprC | 775 | 556 ctx | neighborhood:556 textmining:513 |
Rv2395A aprA |
acid and phagosome regulated protein AprA | 822 | 511 ctx | neighborhood:511 textmining:651 |
Rv2395 |
integral membrane protein | 481 | 336 | |
Rv2589 gabT |
4-aminobutyrate aminotransferase | 466 | 41 | textmining:466 |
Rv2138 lppL |
lipoprotein LppL | 405 | 41 | textmining:405 |
Rv2882c frr |
ribosome recycling factor | 404 | 41 | textmining:405 |
Rv0757 phoP |
two component system response transcriptional positive regulator PhoP | 403 | 41 | textmining:403 |
Rv2588c yajC |
membrane protein secretion factor YajC | 403 | 41 | textmining:403 |
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
- Annotation from H37Rv (no MTBC0 1:1 anchor; H37Rv protein used): acid and phagosome regulated protein AprB
- (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 YP_007411092.1)
- Domains: Pfam-A via hmmscan --cut_ga — none above threshold
- Sequence-level signal: ESM Atlas (EvolutionaryScale × BioHub) — exploratory
- Curated reference: UniProt V5QRX2 (TrEMBL, unreviewed; Predicted)
- 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 —
8 functional partner(s); context anchor
PE_PGRS41 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv2395B|aprB MPGLVPAMPLDALRPARQPTSGLGECATMRRPEAGNEKVAVIWESLDVVPPESL