Rv1708 Resolved · high auto-curated
H37Rv Rv1708 · MTBC0 - ·
318 aa · 1936360–1937316 (+) ·
RefSeq NP_216224.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | initiation inhibitor protein |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Initiation inhibitor protein. Pfam: AAA_31 (PF13614.13), ParA (PF10609.16), CBP_BcsQ (PF06564.19), CbiA (PF01656.30), ArsA_ATPase (PF02374.22), Fer4_NifH (PF00142.25). |
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 |
P9WLT1
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized protein Rv1708 |
| Curated function | May play a role in septum formation. |
UniProt still lists this protein as Uncharacterized protein Rv1708; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
D Cell cycle control, cell division, chromosome partitioning
|
|---|---|
| Preferred name | soj |
| eggNOG description | involved in chromosome partitioning |
| Orthologous group | COG1192 |
| KEGG orthology |
K03496
|
| Gene Ontology (16) |
GO:0005575, GO:0005622, GO:0005623, GO:0005886, GO:0008150, GO:0009295, GO:0016020, GO:0040007, GO:0043226, GO:0043228, GO:0043229, GO:0043232 +4 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 | 0.363 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 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)
| Pfam | Accession | i-Evalue | Residues | Description |
|---|---|---|---|---|
AAA_31 | PF13614.13 | 4.3e-59 | 64–241 | AAA domain |
ParA | PF10609.16 | 1.5e-06 | 65–106 | NUBPL iron-transfer P-loop NTPase |
CBP_BcsQ | PF06564.19 | 6.8e-11 | 66–310 | Cellulose biosynthesis protein BcsQ |
CbiA | PF01656.30 | 4.1e-26 | 67–292 | CobQ/CobB/MinD/ParA nucleotide binding domain |
ArsA_ATPase | PF02374.22 | 7.0e-06 | 70–113 | Anion-transporting ATPase |
Fer4_NifH | PF00142.25 | 8.5e-08 | 72–314 | 4Fe-4S iron sulfur cluster binding proteins, NifH/frxC family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: scpA (segregation and condensation protein ScpA), high confidence from genomic context alone (score 974 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv1709 scpA |
segregation and condensation protein ScpA | 976 | 974 ctx | neighborhood:881 coexpression:736 |
Rv3917c parB |
chromosome partitioning protein ParB | 945 | 924 ctx | cooccurence:773 coexpression:478 |
Rv1710 scpB |
segregation and condensation protein ScpB | 923 | 919 ctx | neighborhood:882 |
Rv1712 cmk |
cytidylate kinase | 888 | 889 ctx | neighborhood:881 |
Rv1711 |
RNA pseudouridine synthase | 886 | 887 ctx | neighborhood:881 |
Rv1713 engA |
GTPase Der | 883 | 883 ctx | neighborhood:881 |
Rv1707 |
transmembrane protein | 758 | 759 ctx | neighborhood:757 |
Rv2647 hyp |
hypothetical protein | 690 | 671 | coexpression:479 |
Rv2748c ftsK |
DNA translocase FtsK | 678 | 613 ctx | cooccurence:597 |
Rv1703c |
methyltransferase | 557 | 558 ctx | neighborhood:544 |
Rv0001 dnaA |
chromosomal replication initiator protein DnaA | 774 | 555 | textmining:515 |
Rv1714 |
oxidoreductase | 494 | 494 ctx | neighborhood:489 |
Rv1716 hyp |
hypothetical protein | 492 | 492 ctx | neighborhood:489 |
Rv1715 fadB3 |
3-hydroxybutyryl-CoA dehydrogenase FadB | 491 | 491 ctx | neighborhood:488 |
Rv2916c ffh |
signal recognition particle protein | 483 | 483 | coexpression:415 |
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): initiation inhibitor protein
- Pfam (hmmscan --cut_ga): AAA_31 PF13614.13 (E=4e-59), ParA PF10609.16 (E=2e-06), CBP_BcsQ PF06564.19 (E=7e-11), CbiA PF01656.30 (E=4e-26), ArsA_ATPase PF02374.22 (E=7e-06), Fer4_NifH PF00142.25 (E=8e-08)
- (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_216224.1)
- Domains: Pfam-A via hmmscan --cut_ga — AAA_31 (PF13614.13), ParA (PF10609.16), CBP_BcsQ (PF06564.19), CbiA (PF01656.30), ArsA_ATPase (PF02374.22), Fer4_NifH (PF00142.25)
- 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
COG1192 - Curated reference: UniProt P9WLT1 (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 —
40 functional partner(s); context anchor
scpA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv1708| MPAGLPGQASVAVRLSCDVPPDARHHEPRPGMTDHPDTGNGIGLTGRPPRAIPDPAPRSSHGPAKVIAMCNQKGGVGKTTSTINLGAALGEYGRRVLLVDMDPQGALSAGLGVPHYELDKTIHNVLVEPRVSIDDVLIHSRVKNMDLVPSNIDLSAAEIQLVNEVGREQTLARALYPVLDRYDYVLIDCQPSLGLLTVNGLACTDGVIIPTECEFFSLRGLALLTDTVDKVRDRLNPKLDISGILITRYDPRTVNSREVMARVVERFGDLVFDTVITRTVRFPETSVAGEPITTWAPKSAGALAYRALARELIDRFGM