iniC Resolved · high auto-curated
H37Rv Rv0343 · MTBC0 mtbc0_000363 ·
493 aa · 416080–417561 (+) ·
RefSeq NP_214857.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | iIsoniazid inductible protein IniC |
|---|---|
| MTBC0 PGAP re-annotation | isoniazid-induced dynamin-like GTPase IniC |
| Revised (this work) | Isoniazid-induced dynamin-like GTPase IniC. Pfam: MMR_HSR1 (PF01926.30), Dynamin_N (PF00350.30). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WJ95
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | Isoniazid-induced protein IniC |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
S Function unknown
|
|---|---|
| Preferred name | iniC |
| eggNOG description | Isoniazid inducible protein IniC |
| Orthologous group | COG0699 |
| Gene Ontology (11) |
GO:0005575, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0005886, GO:0016020, GO:0044424, GO:0044444, GO:0044464, GO:0071944
|
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 | 0.284 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 4 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 |
|---|---|---|---|---|
MMR_HSR1 | PF01926.30 | 3.8e-05 | 46–179 | 50S ribosome-binding GTPase |
Dynamin_N | PF00350.30 | 1.7e-08 | 47–149 | Dynamin family |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: iniA (isoniazid inductible protein IniA), high confidence from genomic context alone (score 989 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv0342 iniA |
isoniazid inductible protein IniA | 988 | 989 ctx | neighborhood:780 cooccurence:774 coexpression:788 |
Rv0053 rpsF |
30S ribosomal protein S6 | 899 | 899 | experimental:704 database:662 |
Rv2909c rpsP |
30S ribosomal protein S16 | 897 | 884 | experimental:667 database:662 |
Rv0683 rpsG |
30S ribosomal protein S7 | 877 | 863 | experimental:609 database:662 |
Rv3442c rpsI |
30S ribosomal protein S9 | 852 | 837 | experimental:516 database:662 |
Rv0339c iniR |
transcriptional regulator | 852 | 834 ctx | cooccurence:774 |
Rv0700 rpsJ |
30S ribosomal protein S10 | 838 | 818 | experimental:457 database:662 |
Rv2890c rpsB |
30S ribosomal protein S2 | 821 | 815 | experimental:446 database:662 |
Rv2785c rpsO |
30S ribosomal protein S15 | 832 | 813 | experimental:442 database:662 |
Rv0721 rpsE |
30S ribosomal protein S5 | 828 | 813 | experimental:452 database:662 |
Rv0341 iniB |
isoniazid inducible protein IniB | 984 | 809 ctx | neighborhood:747 textmining:923 |
Rv2445c ndkA |
nucleoside diphosphate kinase | 800 | 800 | database:662 |
Rv0682 rpsL |
30S ribosomal protein S12 | 893 | 798 | experimental:425 database:661 textmining:497 |
Rv2056c rpsN2 |
30S ribosomal protein S14 | 785 | 765 | database:632 |
Rv0717 rpsN1 |
30S ribosomal protein S14 | 784 | 764 | database:632 |
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: iIsoniazid inductible protein IniC
- MTBC0 PGAP product: isoniazid-induced dynamin-like GTPase IniC
- Pfam (hmmscan --cut_ga): MMR_HSR1 PF01926.30 (E=4e-05), Dynamin_N PF00350.30 (E=2e-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_214857.1)
- Domains: Pfam-A via hmmscan --cut_ga — MMR_HSR1 (PF01926.30), 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 P9WJ95 (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 —
77 functional partner(s); context anchor
iniA - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_000363|Rv0343|iniC MSTSDRVRAILHATIQAYRGAPAYRQRGDVFCQLDRIGARLAEPLRIALAGTLKAGKSTLVNALVGDDIAPTDATEATRIVTWFRHGPTPRVTANHRGGRRANVPITRRGGLSFDLRRINPAELIDLEVEWPAEELIDATIVDTPGTSSLACDASERTLRLLVPADGVPRVDAVVFLLRTLNAADVALLKQIGGLVGGSVGALGIIGVASRADEIGAGRIDAMLSANDVAKRFTRELNQMGICQAVVPVSGLLALTARTLRQTEFIALRKLAGAERTELNRALLSVDRFVRRDSPLPVDAGIRAQLLERFGMFGIRMSIAVLAAGVTDSTGLAAELLERSGLVALRNVIDQQFAQRSDMLKAHTALVSLRRFVQTHPVPATPYVIADIDPLLADTHAFEELRMLSLLPSRATTLNDDEIASLRRIIGGSGTSAAARLGLDPANSREAPRAALAAAQHWRRRAAHPLNDPFTTRACRAAVRSAEAMVAEFSARR