Rv1748 Still unknown · low auto-curated
H37Rv Rv1748 · MTBC0 - ·
243 aa · 1976600–1977331 (+) ·
RefSeq NP_216264.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Conserved hypothetical protein; no recognised domain. Function unknown. Foldseek best (non-significant) hit: 6rf0-assembly1_C Crystal structure of the light-driven sodium pump KR2 (prob 0.20, TM 0.32). |
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 |
P72005
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized protein |
UniProt still lists this protein as Uncharacterized protein; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| Orthologous group | 2ERCX |
|---|
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 | 0.119 · strong purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 synonymous, 1 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).
Structural neighbours (Foldseek on the ESMFold model, exploratory)
ESMFold model confidence: mean pLDDT 89.3 (confident). A confident model makes the fold comparison meaningful.
Best matches against the PDB, ranked by Foldseek homology probability. A high probability / TM-score suggests a shared fold; unless flagged sig (E < 0.01) these are fold hypotheses, not assignments.
| Target | Prob | TM | E-value | Description |
|---|---|---|---|---|
6rf0-assembly1_C |
0.20 | 0.32 | 1.4e+00 | 6rf0-assembly1_C Crystal structure of the light-driven sodium pump KR2 in the pentameric "dry" form |
6rf4-assembly1_B |
0.14 | 0.32 | 2.8e+00 | 6rf4-assembly1_B Crystal structure of the potassium-pumping S254A mutant of the light-driven sodium pump KR2 in the pentameric form, pH 8.0 |
4xtn-assembly2_G |
0.13 | 0.32 | 3.1e+00 | 4xtn-assembly2_G Crystal structure of the light-driven sodium pump KR2 in the pentameric red form, pH 4.9 |
6rf0-assembly1_A |
0.13 | 0.32 | 2.9e+00 | 6rf0-assembly1_A Crystal structure of the light-driven sodium pump KR2 in the pentameric "dry" form |
6rf4-assembly1_D |
0.13 | 0.32 | 2.9e+00 | 6rf4-assembly1_D Crystal structure of the potassium-pumping S254A mutant of the light-driven sodium pump KR2 in the pentameric form, pH 8.0 |
6xyt-assembly1_C |
0.13 | 0.32 | 3.1e+00 | 6xyt-assembly1_C Crystal structure of the O-state of the light-driven sodium pump KR2 in the pentameric form, pH 8.0 |
6rf3-assembly1_B |
0.12 | 0.32 | 3.4e+00 | 6rf3-assembly1_B Crystal structure of the potassium-pumping G263F mutant of the light-driven sodium pump KR2 in the pentameric form, pH 8.0 |
6yc2-assembly1_B |
0.11 | 0.32 | 3.5e+00 | 6yc2-assembly1_B Crystal structure of the light-driven sodium pump KR2 in the pentameric form at room temperature, pH 8.0 |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv0180c (transmembrane protein), medium confidence from genomic context alone (score 661 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) |
|---|---|---|---|---|
Rv1006 hyp |
hypothetical protein | 685 | 685 ctx | cooccurence:685 |
Rv1868 hyp |
hypothetical protein | 662 | 663 ctx | cooccurence:661 |
Rv0180c |
transmembrane protein | 661 | 661 ctx | cooccurence:659 |
Rv1364c |
sigma factor regulatory protein | 599 | 600 ctx | cooccurence:594 |
Rv1435c hyp |
hypothetical protein | 595 | 595 ctx | cooccurence:594 |
Rv0219 |
transmembrane protein | 579 | 580 ctx | cooccurence:576 |
Rv0541c |
integral membrane protein | 569 | 569 ctx | cooccurence:569 |
Rv3886c mycP2 |
membrane-anchored mycosin | 563 | 564 ctx | cooccurence:562 |
Rv2114 hyp |
hypothetical protein | 552 | 552 ctx | cooccurence:552 |
Rv1126c hyp |
hypothetical protein | 538 | 539 ctx | cooccurence:532 |
Rv2047c hyp |
hypothetical protein | 538 | 538 ctx | cooccurence:537 |
Rv1796 mycP5 |
membrane-anchored mycosin MycP | 511 | 511 ctx | cooccurence:511 |
Rv2938 drrC |
daunorubicin ABC transporter permease DrrC | 484 | 484 ctx | cooccurence:484 |
Rv3033 hyp |
hypothetical protein | 483 | 483 ctx | cooccurence:480 |
Rv1816 |
HTH-type transcriptional regulator | 482 | 482 ctx | cooccurence:482 |
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): hypothetical protein
- Foldseek best: 6rf0-assembly1_C Crystal structure of the light-driven sodium pump KR2 in the pe (prob 0.20, E=1e+00, TM=0.32)
- (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_216264.1)
- Domains: Pfam-A via hmmscan --cut_ga — none above threshold
- 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
2ERCX - Curated reference: UniProt P72005 (TrEMBL, unreviewed; 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)
- Model confidence: ESMFold per-residue pLDDT (mean 89.3, confident)
- Interaction network: STRING v12.0 (Szklarczyk et al. 2023,
doi:10.1093/nar/gkac1000), taxon 83332, CC-BY 4.0 —
24 functional partner(s); context anchor
Rv0180c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv1748| MPGGVCSGRPWGRPWWHPGLVGLLIRLAELLVVMLPLIGVLYVGIKALSSFTRRLGEASGDLASDSPAMPRPTTVENDAARWRAITRAVEAHERTDARWLEYELDAAKLLDFPVMTDMRDPLTTAFHKAKLQADFHKPLRAEDLLDDPDAAGHYLDAVRDYVTAFDTAEAEAMRRRRTGFSREEQQRLARAQSLLRVASDAGATAQERERAYRLARTELDGLIVLPDRTRAGIERGIAGELDD