Rv3193c Family assigned · low auto-curated
H37Rv Rv3193c · MTBC0 mtbc0_003394 ·
992 aa · 3582326–3585304 (-) ·
RefSeq NP_217709.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | transmembrane protein |
|---|---|
| MTBC0 PGAP re-annotation | UPF0182 family protein |
| Revised (this work) | UPF0182 family protein. |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WFL3
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | UPF0182 protein Rv3193c |
UniProt still lists this protein as UPF0182 protein Rv3193c; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | UPF0182 protein |
| Orthologous group | COG1615 |
| KEGG orthology |
K09118
|
| Gene Ontology (15) |
GO:0005575, GO:0005576, GO:0005618, GO:0005623, GO:0005886, GO:0005887, GO:0016020, GO:0016021, GO:0030312, GO:0031224, GO:0031226, GO:0044425 +3 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)
| pN/pS | 0.342 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 9 synonymous, 9 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 |
|---|---|---|---|---|
UPF0182 | PF03699.19 | 4.0e-270 | 20–821 | Uncharacterised protein family (UPF0182) |
Functional interaction network (STRING v12, guilt-by-association)
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3194c hyp |
hypothetical protein | 804 | 803 ctx | neighborhood:778 |
Rv3195 hyp |
hypothetical protein | 569 | 569 ctx | neighborhood:502 |
Rv3196 hyp |
hypothetical protein | 436 | 436 ctx | neighborhood:435 |
Rv3495c lprN |
Mce family lipoprotein LprN | 802 | 50 | textmining:801 |
Rv3427c istB |
transposase | 658 | 47 | textmining:656 |
Rv0013 trpG |
anthranilate synthase component II | 448 | 47 | textmining:445 |
Rv3048c nrdF2 |
ribonucleoside-diphosphate reductase subunit beta NrdF2 | 413 | 46 | textmining:410 |
Rv3428c |
transposase | 730 | 44 | textmining:730 |
Rv1756c |
Putative transposase; Rv1756c, (MTCY28.22c), len: 328 aa. Putative Transposase subunit for IS6110. Identical to many other M. tuberculosis I | 526 | 44 | textmining:525 |
Rv3188 hyp |
hypothetical protein | 807 | 41 | textmining:807 |
Rv3231c hyp |
hypothetical protein | 630 | 41 | textmining:630 |
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: transmembrane protein
- MTBC0 PGAP product: UPF0182 family protein
- Pfam (hmmscan --cut_ga): UPF0182 PF03699.19 (E=4e-270)
- (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_217709.1)
- Domains: Pfam-A via hmmscan --cut_ga — UPF0182 (PF03699.19)
- 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
COG1615 - Curated reference: UniProt P9WFL3 (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 — 11 functional partner(s)
- Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_003394|Rv3193c| MGMRSAARMPKLTRRSRILIMIALGVIVLLLAGPRLIDAYVDWLWFGELGYRSVFTTMLATRIVVCLVAGVVVGGIVFGGLALAYRTRPVFVPDADNDPVARYRAVVLARLRLVGIGIPAAIGLLAGIVAQSYWARIQLFLHGGDFGVRDPQFGRDLGFYAFELPFYRLMLSYMLVSVFLAFVANLVAHYIFGGIRLSGRTGALSRSARVQLVSLVGVLVLLKAVAYWLDRYELLSHTRGGKPFTGAGYTDINAVLPAKLILMAIALICAAAVFSAIALRDLRIPAIGLVLLLLSSLIVGAGWPLIVEQISVKPNAAQKESEYISRSITATRQAYGLTSDVVTYRNYSGDSPATAQQVAADRATTSNIRLLDPTIVSPAFTQFQQGKNFYYFPDQLSIDRYLDRNGNLRDYVVAARELNPDRLIDNQRDWINRHTVYTHGNGFIASPANTVRGIANDPNQNGGYPEFLVNVVGANGTVVSDGPAPLDQPRIYFGPVISNTSADYAIVGRNGDDREYDYETNIDTKRYTYTGSGGVPLGGWLARSVFAAKFAERNFLFSNVIGSNSKILFNRDPAQRVEAVAPWLTTDSAVYPAIVNKRLVWIVDGYTTLDNYPYSELTSLSSATADSNEVAFNRLVPDKKVSYIRNSVKATVDAYDGTVTLYQQDEKDPVLKAWMQVFPGTVKPKSDIAPELAEHLRYPEDLFKVQRMLLAKYHVNDPVTFFSTSDFWDVPLDPNPTASSYQPPYYIVAKNIAKDDNSASYQLISAMNRFKRDYLAAYISASSDPATYGNLTVLTIPGQVNGPKLANNAITTDPAVSQDLGVIGRDNQNRIRWGNLLTLPVAQGGLLYVEPVYASPGASDAASSYPRLIRVAMMYNDKVGYGPTVRDALTGLFGPGAGATATGIAPTEAAVPPSPAANPPPPASGPQPPPVTAAPPVPVGAVTLSPAKVAALQEIQAAIGAARDAQKKGDFAAYGSALQRLDEAITKFNDAG