iniA Resolved · high auto-curated
H37Rv Rv0342 · MTBC0 - ·
640 aa · 410838–412760 (+) ·
RefSeq NP_214856.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | isoniazid inductible protein IniA |
|---|---|
| MTBC0 PGAP re-annotation | — |
| Revised (this work) | Isoniazid inductible protein IniA. Pfam: Dynamin_N (PF00350.30). |
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 |
P9WJ99
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Isoniazid-induced protein IniA |
| Curated function | Participates in the development of tolerance to both isoniazid and ethambutol. May function through a MDR-pump like mechanism, although it does not appear to directly transport isoniazid from the cell. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| Preferred name | iniA |
| eggNOG description | Dynamin family |
| Orthologous group | COG0699 |
| Gene Ontology (17) |
GO:0003674, GO:0005215, GO:0005575, GO:0005618, GO:0005623, GO:0005886, GO:0006810, GO:0008150, GO:0015562, GO:0016020, GO:0022857, GO:0030312 +5 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 | 0.631 · relaxed/neutral |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 5 synonymous, 9 missense, 0 nonsense, 1 frameshift |
| Disruption | 1 distinct premature-stop/frameshift site(s); most common in 0.33% of strains (485) · clonal |
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 |
|---|---|---|---|---|
Dynamin_N | PF00350.30 | 3.0e-09 | 73–220 | Dynamin family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: iniC (iIsoniazid inductible protein IniC), high confidence from genomic context alone (score 989 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0343 iniC |
iIsoniazid inductible protein IniC | 988 | 989 ctx | neighborhood:780 cooccurence:774 coexpression:788 |
Rv0341 iniB |
isoniazid inducible protein IniB | 954 | 952 ctx | neighborhood:651 coexpression:839 |
Rv0339c iniR |
transcriptional regulator | 837 | 837 ctx | cooccurence:774 |
Rv0312 hyp |
hypothetical protein | 806 | 795 ctx | cooccurence:607 database:411 |
Rv2264c hyp |
hypothetical protein | 798 | 786 ctx | cooccurence:587 database:411 |
Rv3835 hyp |
hypothetical protein | 679 | 679 ctx | cooccurence:678 |
Rv1853 ureD |
urease accessory protein UreD | 656 | 656 ctx | cooccurence:656 |
Rv3459c rpsK |
30S ribosomal protein S11 | 654 | 654 | database:609 |
Rv0563 htpX |
protease HtpX | 666 | 647 | database:643 |
Rv1977 hyp |
hypothetical protein | 664 | 644 | database:643 |
Rv1845c blaR |
sensor-transducer protein BlaR | 663 | 644 | database:643 |
Rv3077 |
hydrolase | 634 | 635 | database:517 |
Rv2006 otsB1 |
trehalose-6-phosphate phosphatase OtsB | 630 | 631 | database:587 |
Rv3372 otsB2 |
trehalose 6-phosphate phosphatase | 629 | 630 | database:587 |
Rv2843 hyp |
hypothetical protein | 620 | 620 ctx | cooccurence:620 |
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): isoniazid inductible protein IniA
- Pfam (hmmscan --cut_ga): Dynamin_N PF00350.30 (E=3e-09)
- (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_214856.1)
- Domains: Pfam-A via hmmscan --cut_ga — Dynamin_N (PF00350.30)
- 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
COG0699 - Curated reference: UniProt P9WJ99 (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 —
69 functional partner(s); context anchor
iniC - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>H37Rv|Rv0342|iniA MVPAGLCAYRDLRRKRARKWGDTVTQPDDPRRVGVIVELIDHTIAIAKLNERGDLVQRLTRARQRITDPQVRVVIAGLLKQGKSQLLNSLLNLPAARVGDDEATVVITVVSYSAQPSARLVLAAGPDGTTAAVDIPVDDISTDVRRAPHAGGREVLRVEVGAPSPLLRGGLAFIDTPGVGGLGQPHLSATLGLLPEADAVLVVSDTSQEFTEPEMWFVRQAHQICPVGAVVATKTDLYPRWREIVNANAAHLQRARVPMPIIAVSSLLRSHAVTLNDKELNEESNFPAIVKFLSEQVLSRATERVRAGVLGEIRSATEQLAVSLGSELSVVNDPNLRDRLASDLERRKREAQQAVQQTALWQQVLGDGFNDLTADVDHDLRTRFRTVTEDAERQIDSCDPTAHWAEIGNDVENAIATAVGDNFVWAYQRSEALADDVARSFADAGLDSVLSAELSPHVMGTDFGRLKALGRMESKPLRRGHKMIIGMRGSYGGVVMIGMLSSVVGLGLFNPLSVGAGLILGRMAYKEDKQNRLLRVRSEAKANVRRFVDDISFVVSKQSRDRLKMIQRLLRDHYREIAEEITRSLTESLQATIAAAQVAETERDNRIRELQRQLGILSQVNDNLAGLEPTLTPRASLGRA