Rv3395c Family assigned · medium auto-curated
H37Rv Rv3395c · MTBC0 mtbc0_003607 ·
204 aa · 3836461–3837075 (-) ·
RefSeq NP_217912.2
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | hypothetical protein |
|---|---|
| MTBC0 PGAP re-annotation | hypothetical protein |
| Revised (this work) | Contains MT3502_N (PF27531.1), Rv3395c_C (PF27314.1) domain(s); putative function inferred from the domain architecture. |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WKZ9
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Uncharacterized protein Rv3395c |
UniProt still lists this protein as Uncharacterized protein Rv3395c; the revised annotation above is ahead of the current UniProt record.
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| eggNOG description | Component of the SOS system and an inhibitor of cell division. Accumulation of SulA causes rapid cessation of cell division and the appearance of long, non-septate filaments. In the presence of GTP, binds a polymerization-competent form of FtsZ in a 1 1 ratio, thus inhibiting FtsZ polymerization and therefore preventing it from participating in the assembly of the Z ring. This mechanism prevents the premature segregation of damaged DNA to daughter cells during cell division |
| Orthologous group | COG4544 |
| Gene Ontology (22) |
GO:0006139, GO:0006259, GO:0006281, GO:0006725, GO:0006807, GO:0006950, GO:0006974, GO:0008150, GO:0008152, GO:0009987, GO:0033554, GO:0034641 +10 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 | 1.232 · diversifying/relaxed |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 1 synonymous, 3 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 |
|---|---|---|---|---|
MT3502_N | PF27531.1 | 4.6e-36 | 49–163 | MT3502 N-terminal domain |
Rv3395c_C | PF27314.1 | 8.7e-19 | 166–204 | Rv3395c C-terminal domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: dnaE2 (error-prone DNA polymerase), high confidence from genomic context alone (score 879 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) |
|---|---|---|---|---|
Rv3394c hyp |
hypothetical protein | 999 | 998 ctx | neighborhood:882 cooccurence:772 coexpression:936 textmining:661 |
Rv3370c dnaE2 |
error-prone DNA polymerase | 958 | 879 ctx | cooccurence:762 coexpression:432 textmining:671 |
Rv1537 dinX |
DNA polymerase IV | 761 | 704 | coexpression:693 |
Rv3056 dinP |
DNA polymerase IV 2 | 730 | 701 | coexpression:690 |
Rv3395A |
membrane protein | 948 | 617 ctx | neighborhood:615 textmining:870 |
Rv3396c guaA |
GMP synthase | 546 | 546 ctx | neighborhood:544 |
Rv0513 |
transmembrane protein | 507 | 507 ctx | cooccurence:500 |
Rv1547 dnaE1 |
DNA polymerase III subunit alpha | 522 | 444 | coexpression:412 |
Rv1249c |
membrane protein | 427 | 427 ctx | cooccurence:409 |
Rv2560 hyp |
hypothetical protein | 418 | 418 ctx | cooccurence:418 |
Rv3196 hyp |
hypothetical protein | 415 | 415 ctx | cooccurence:413 |
Rv1696 recN |
DNA repair protein RecN | 559 | 410 | coexpression:410 |
Rv3776 hyp |
hypothetical protein | 513 | 410 | |
Rv2100 hyp |
hypothetical protein | 879 | 409 | textmining:804 |
Rv0784 hyp |
hypothetical protein | 401 | 401 |
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: hypothetical protein
- MTBC0 PGAP product: hypothetical protein
- Pfam (hmmscan --cut_ga): MT3502_N PF27531.1 (E=5e-36), Rv3395c_C PF27314.1 (E=9e-19)
- (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_217912.2)
- Domains: Pfam-A via hmmscan --cut_ga — MT3502_N (PF27531.1), Rv3395c_C (PF27314.1)
- 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
COG4544 - Curated reference: UniProt P9WKZ9 (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 —
29 functional partner(s); context anchor
dnaE2 - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_003607|Rv3395c| MTVAFASDQRLENGAEQLESLRRQMALLSEKVSGGPSRSGDLVPAGPVSLPPGTVGVLSGARSLLLSMVASVTAAGGNAAIVGQPDIGLLAAVEMGADLSRLAVIPDPGTDPVEVAAVLIDGMDLVVLGLGGRRVTRARARAVVARARQKGCTLLVTDGDWQGVSTRLAARVCGYEITPALRGVPTPGLGRISGVRLQINGRGR