Rv1672c Resolved · high auto-curated
H37Rv Rv1672c · MTBC0 mtbc0_001779 ·
443 aa · 1908891–1910222 (-) ·
RefSeq NP_216188.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | integral membrane transport protein |
|---|---|
| MTBC0 PGAP re-annotation | MFS transporter |
| Revised (this work) | MFS transporter. Pfam: MFS_1 (PF07690.22). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O53919
TrEMBL · unreviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Probable conserved integral membrane transport protein |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
E Amino acid transport and metabolismG Carbohydrate transport and metabolismP Inorganic ion transport and metabolism
|
|---|---|
| eggNOG description | Major Facilitator Superfamily |
| Orthologous group | COG0477 |
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 | 0.655 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 6 synonymous, 10 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 |
|---|---|---|---|---|
MFS_1 | PF07690.22 | 8.3e-36 | 24–384 | Major Facilitator Superfamily |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: Rv1674c (transcriptional regulator), medium confidence from genomic context alone (score 552 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1673c hyp |
hypothetical protein | 945 | 599 ctx | neighborhood:591 textmining:870 |
Rv1674c |
transcriptional regulator | 941 | 552 ctx | neighborhood:502 textmining:875 |
Rv1902c nanT |
sialic acid-transport integral membrane protein NanT | 557 | 541 ctx | cooccurence:530 |
Rv3331 sugI |
sugar-transport integral membrane protein SugI | 776 | 400 | textmining:643 |
Rv3696c glpK |
glycerol kinase | 422 | 241 | |
Rv1192 hyp |
hypothetical protein | 411 | 155 | |
Rv2434c |
transmembrane protein | 544 | 78 | textmining:526 |
Rv2581c |
glyoxalase II | 492 | 68 | textmining:478 |
Rv0271c fadE6 |
acyl-CoA dehydrogenase FadE6 | 525 | 53 | textmining:520 |
Rv1671 |
membrane protein | 871 | 51 | textmining:870 |
Rv0796 |
Putative transposase for insertion sequence element IS6110; Involved in the transposition of the insertion sequence. | 439 | 46 | textmining:437 |
Rv0795 |
Rv0795, (MTV042.05), len: 108 aa. Putative transposase for IS6110 (fragment), identical to Q50686 insertion element IS6110 (108 aa), FASTA s | 512 | 44 | textmining:511 |
Rv3184 |
Rv3184, (MTV014.28), len: 108 aa. Putative Transposase for IS6110 (fragment). Identical to many other M. tuberculosis IS6110 transposase sub | 655 | 41 | textmining:655 |
Rv1496 meaB |
transport system kinase | 479 | 41 | textmining:479 |
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: integral membrane transport protein
- MTBC0 PGAP product: MFS transporter
- Pfam (hmmscan --cut_ga): MFS_1 PF07690.22 (E=8e-36)
- (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_216188.1)
- Domains: Pfam-A via hmmscan --cut_ga — MFS_1 (PF07690.22)
- 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
COG0477 - Curated reference: UniProt O53919 (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)
- Interaction network: STRING v12.0 (Szklarczyk et al. 2023,
doi:10.1093/nar/gkac1000), taxon 83332, CC-BY 4.0 —
14 functional partner(s); context anchor
Rv1674c - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_001779|Rv1672c| MATIAASPTHNALGKAARRLLPLLFVLYVINFVDRANISVAALAMNADLRLSATAYGTAAGVFFLGYVLFQVPANAALARFGAGRTLTAVVLAWGVCSAATALVTSAHTLYLARFALGVAEGGFFPGVIAYLTVWFPCAQRARAVATFLLAIPVANTVGLPLSGLIVGHVHMAGLPGWRAMFVIEALPALLLAPLLRRLLPDNPQRASWLTPEERAELSARLTEDTPAPTGRSSGAGWDLVLFAVVYGGLYFALYALQFFLPQLVASLAHGTATLTAATLAALPYGVAALAMLAWSHRSIDRSGAQAGHITLPTTAAGSAALGAALSPMSPIVTLSWLTIAVAGILAAMPAFWSRCTAALAGPRVAVAIATVNAVASLASFAGPYATGHLKDATGTYHLALLTVAAVLAAAAACSLLLRHAGRTVCANDSEIMLHPSPATPFV