Rv1363c Still unknown · low auto-curated
H37Rv Rv1363c · MTBC0 mtbc0_001465 ·
261 aa · 1545309–1546094 (-) ·
RefSeq NP_215879.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | membrane protein |
|---|---|
| MTBC0 PGAP re-annotation | hypothetical protein |
| Revised (this work) | Conserved hypothetical protein; no recognised domain. Function unknown. |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WLZ9
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized protein Rv1363c |
UniProt still lists this protein as Uncharacterized protein Rv1363c; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| Orthologous group | 2E5BU |
|---|---|
| KEGG orthology |
K18481
|
| KEGG modules |
M00670
|
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 | 0.643 · 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)
No Pfam-A domain above the gathering threshold (or not yet scanned).
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv1362c (membrane protein), high confidence from genomic context alone (score 987 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1362c |
membrane protein | 986 | 987 ctx | neighborhood:800 cooccurence:773 coexpression:732 |
Rv3492c |
Mce associated protein | 770 | 771 ctx | cooccurence:764 |
Rv1973 |
Mce associated membrane protein | 760 | 760 ctx | cooccurence:726 |
Rv0172 mce1D |
Mce family protein Mce1D | 758 | 758 ctx | cooccurence:747 |
Rv0169 mce1A |
Mce family protein Mce1A | 751 | 751 ctx | cooccurence:740 |
Rv0594 mce2F |
Mce family protein Mce2F | 750 | 751 ctx | cooccurence:740 |
Rv0174 mce1F |
Mce family protein Mce1F | 748 | 749 ctx | cooccurence:738 |
Rv3499c mce4A |
Mce family protein Mce4A | 745 | 745 ctx | cooccurence:733 |
Rv3825c pks2 |
phthioceranic/hydroxyphthioceranic acid synthase | 764 | 736 | experimental:470 database:508 |
Rv2048c pks12 |
polyketide synthase | 763 | 735 | experimental:470 database:508 |
Rv1527c pks5 |
polyketide synthase | 763 | 735 | experimental:470 database:508 |
Rv2940c mas |
multifunctional mycocerosic acid synthase | 763 | 735 | experimental:470 database:508 |
Rv2933 ppsC |
phthiocerol synthesis polyketide synthase type I PpsC | 762 | 735 | experimental:470 database:508 |
Rv2267c stf3 hyp |
hypothetical protein | 746 | 735 | experimental:417 database:540 |
Rv3446c hyp |
hypothetical protein | 743 | 733 |
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: membrane protein
- MTBC0 PGAP product: hypothetical protein
- (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_215879.1)
- 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
2E5BU - Curated reference: UniProt P9WLZ9 (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 —
303 functional partner(s); context anchor
Rv1362c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001465|Rv1363c| MAETTEPPSDAGTSQADAMALAAEAEAAEAEALAAAARARARAARLKREALAMAPAEDENVPEEYADWEDAEDYDDYDDYEAADQEAARSASWRRRLRVRLPRLSTIAMAAAVVIICGFTGLSGYIVWQHHEATERQQRAAAFAAGAKQGVINMTSLDFNKAKEDVARVIDSSTGEFRDDFQQRAADFTKVVEQSKVVTEGTVNATAVESMNEHSAVVLVAATSRVTNSAGAKDEPRAWRLKVTVTEEGGQYKMSKVEFVP