Rv1619 Resolved · high auto-curated
H37Rv Rv1619 · MTBC0 mtbc0_001726 ·
484 aa · 1830539–1831993 (+) ·
RefSeq NP_216135.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | bifunctional lysylphosphatidylglycerol flippase/synthetase MprF |
| Revised (this work) | Bifunctional lysylphosphatidylglycerol flippase/synthetase MprF. Pfam: LPG_synthase_C (PF09924.16). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O06136
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | MprF-like domain protein Rv1619 |
| Curated function | Plays a role in mycobacterial fitness. Likely enhances survival of pathogenic strains. Considerably reduces the overall net negative charge on bacterial surface when bacteria are exposed to an acidic environment. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | Uncharacterised conserved protein (DUF2156) |
| Orthologous group | COG2898 |
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 | 0.716 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 6 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 |
|---|---|---|---|---|
LPG_synthase_C | PF09924.16 | 8.0e-64 | 160–459 | Phosphatidylglycerol lysyltransferase, C-terminal |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: tesB1 (acyl-CoA thioesterase II), medium confidence from genomic context alone (score 649 excluding text-mining). This association is the citable seed of a function hypothesis for this hypothetical protein.
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1618 tesB1 |
acyl-CoA thioesterase II | 649 | 649 ctx | neighborhood:647 |
Rv1617 pykA |
pyruvate kinase | 648 | 648 ctx | neighborhood:647 |
Rv0210 hyp |
hypothetical protein | 605 | 605 ctx | cooccurence:604 |
Rv1616 hyp |
hypothetical protein | 587 | 586 ctx | neighborhood:524 |
Rv2577 hyp |
hypothetical protein | 565 | 565 ctx | cooccurence:565 |
Rv0090 |
membrane protein | 565 | 565 ctx | cooccurence:565 |
Rv1182 papA3 |
acyltransferase papA3 | 570 | 548 ctx | cooccurence:545 |
Rv3263 |
DNA methylase | 524 | 525 | coexpression:420 |
Rv1404 |
transcriptional regulator | 538 | 519 ctx | cooccurence:517 |
Rv2226 hyp |
hypothetical protein | 510 | 511 ctx | cooccurence:497 |
Rv3824c papA1 |
acyltransferase | 520 | 494 ctx | cooccurence:491 |
Rv3820c papA2 |
trehalose-2-sulfate acyltransferase | 494 | 467 ctx | cooccurence:467 |
Rv1682 hyp |
hypothetical protein | 451 | 452 ctx | cooccurence:444 |
Rv3129 |
Rv3129, (MTCY164.40), len: 110 aa. Conserved hypothetical protein, with some similarity to various hypothetical proteins from Streptomyces c | 438 | 439 ctx | cooccurence:437 |
Rv1615 |
membrane protein | 430 | 430 ctx | neighborhood:430 |
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: hypothetical protein
- MTBC0 PGAP product: bifunctional lysylphosphatidylglycerol flippase/synthetase MprF
- Pfam (hmmscan --cut_ga): LPG_synthase_C PF09924.16 (E=8e-64)
- (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_216135.1)
- Domains: Pfam-A via hmmscan --cut_ga — LPG_synthase_C (PF09924.16)
- 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
COG2898 - Curated reference: UniProt O06136 (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 —
23 functional partner(s); context anchor
tesB1 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001726|Rv1619| MVAAAGEPLNCQRANPEVTVKLPSADVVPRLRGRQRVVVHVDSRTARCVGALALVCAACWLIALLAGDYRHAQWAVAGRLGWSLTVLAAVAFIARGIFLGRPVTAMHATAAGLFLLAGLAAHVLVADLLGEILIAGSGWALMWPTSAHPRPEDLPRVWALINATRADSLAPFAMQAGKSHHFSAAGTAALAYRTRIGYAVVSGDPIGDEAQFPQLVADFAAMCHMHGWRIVVVGCSERRLGLWSDPMVVGQSLRPIPIGRDVVIDVSNFEMTGRRFRNLRQAVKRTHNFGVTTEIVAEQQLDDQRQAELAEVLAASPSGARTDRGFCMNLDGVLEGRYPGIQLIIARDASGRVQGFHRYATAGGGSDMSLDVPWRRRGAPNGIDERLSADMIAAAKDAGVQRLSLAFAAFPDLFGANQLGRLQRVCRALIHILDPLIALESLYRYLRKFHALDERRYVLISMTQVFALALVLLSLEFVPRRRHL