nuoI Family assigned · medium auto-curated
H37Rv Rv3153 · MTBC0 mtbc0_003351 ·
211 aa · 3543209–3543844 (+) ·
RefSeq NP_217669.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | NADH-quinone oxidoreductase subunit I |
|---|---|
| MTBC0 PGAP re-annotation | NADH-quinone oxidoreductase subunit NuoI |
| Revised (this work) | NADH-quinone oxidoreductase subunit NuoI. Pfam: Fer4_10 (PF13237.12), Fer4_7 (PF12838.13), Fer4_9 (PF13187.12), Fer4 (PF00037.33), Fer4_6 (PF12837.13), Fer4_2 (PF12797.13), Fer4_4 (PF12800.13), Fer4_3 (PF12798.13). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
P9WJG9
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | NADH-quinone oxidoreductase subunit I |
| EC (curated) |
EC 7.1.1.-
|
| Curated function | NDH-1 shuttles electrons from NADH, via FMN and iron-sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be menaquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
C Energy production and conversion
|
|---|---|
| Preferred name | nuoI |
| eggNOG description | NDH-1 shuttles electrons from NADH, via FMN and iron- sulfur (Fe-S) centers, to quinones in the respiratory chain. The immediate electron acceptor for the enzyme in this species is believed to be menaquinone. Couples the redox reaction to proton translocation (for every two electrons transferred, four hydrogen ions are translocated across the cytoplasmic membrane), and thus conserves the redox energy in a proton gradient |
| Orthologous group | COG1143 |
| EC number |
EC 1.6.5.3
|
| KEGG orthology |
K00338, K12143
|
| KEGG pathways |
map00190, map01100
|
| KEGG modules |
M00144
|
| Gene Ontology (11) |
GO:0005575, GO:0005618, GO:0005622, GO:0005623, GO:0005737, GO:0005829, GO:0030312, 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 | 0.339 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 3 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 |
|---|---|---|---|---|
Fer4_10 | PF13237.12 | 4.2e-08 | 79–137 | 4Fe-4S dicluster domain |
Fer4_7 | PF12838.13 | 2.9e-12 | 80–140 | 4Fe-4S dicluster domain |
Fer4_9 | PF13187.12 | 2.6e-07 | 80–140 | 4Fe-4S dicluster domain |
Fer4 | PF00037.33 | 2.8e-09 | 119–142 | 4Fe-4S binding domain |
Fer4_6 | PF12837.13 | 1.4e-05 | 121–141 | 4Fe-4S binding domain |
Fer4_2 | PF12797.13 | 2.1e-05 | 121–138 | 4Fe-4S binding domain |
Fer4_4 | PF12800.13 | 4.2e-04 | 125–138 | 4Fe-4S binding domain |
Fer4_3 | PF12798.13 | 3.1e-03 | 126–140 | 4Fe-4S binding domain |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: nuoC (NADH-quinone oxidoreductase subunit C), high confidence from genomic context alone (score 1000 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv3147 nuoC |
NADH-quinone oxidoreductase subunit C | 999 | 1000 ctx | neighborhood:691 cooccurence:772 coexpression:889 experimental:997 database:844 textmining:641 |
Rv3158 nuoN |
NADH-quinone oxidoreductase subunit N | 999 | 1000 ctx | neighborhood:874 cooccurence:744 coexpression:962 experimental:928 database:666 textmining:494 |
Rv3154 nuoJ |
NADH-quinone oxidoreductase subunit J | 999 | 1000 ctx | neighborhood:882 cooccurence:765 coexpression:970 experimental:922 textmining:734 |
Rv3151 nuoG |
NADH-quinone oxidoreductase subunit G | 999 | 1000 ctx | neighborhood:764 cooccurence:744 coexpression:974 experimental:997 database:895 |
Rv3152 nuoH |
NADH-quinone oxidoreductase subunit H | 999 | 1000 ctx | neighborhood:881 fusion:633 cooccurence:758 coexpression:976 experimental:997 database:731 textmining:744 |
Rv3149 nuoE |
NADH-quinone oxidoreductase subunit E | 999 | 1000 ctx | neighborhood:704 cooccurence:653 coexpression:968 experimental:928 database:800 textmining:603 |
Rv3146 nuoB |
NADH-quinone oxidoreductase subunit B | 999 | 1000 ctx | neighborhood:686 cooccurence:771 coexpression:979 experimental:997 database:925 |
Rv3155 nuoK |
NADH-quinone oxidoreductase subunit K | 999 | 1000 ctx | neighborhood:882 cooccurence:762 coexpression:979 experimental:922 textmining:653 |
Rv3148 nuoD |
NADH-quinone oxidoreductase subunit D | 999 | 1000 ctx | neighborhood:697 cooccurence:773 coexpression:984 experimental:997 database:844 textmining:437 |
Rv0087 hycE |
formate hydrogenase HycE | 999 | 1000 ctx | neighborhood:544 coexpression:434 experimental:999 textmining:545 |
Rv3150 nuoF |
NADH-quinone oxidoreductase subunit F | 999 | 1000 ctx | neighborhood:700 cooccurence:620 coexpression:968 experimental:928 database:800 textmining:500 |
Rv3156 nuoL |
NADH-quinone oxidoreductase subunit L | 999 | 1000 ctx | neighborhood:874 cooccurence:736 coexpression:974 experimental:920 textmining:705 |
Rv3157 nuoM |
NADH-quinone oxidoreductase subunit M | 999 | 1000 ctx | neighborhood:874 cooccurence:686 coexpression:974 experimental:928 database:871 textmining:436 |
Rv3145 nuoA |
NADH-quinone oxidoreductase subunit A | 999 | 1000 ctx | neighborhood:762 cooccurence:754 coexpression:979 experimental:928 database:731 |
Rv3143 |
response regulator | 998 | 999 ctx | cooccurence:516 experimental:997 |
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: NADH-quinone oxidoreductase subunit I
- MTBC0 PGAP product: NADH-quinone oxidoreductase subunit NuoI
- Pfam (hmmscan --cut_ga): Fer4_10 PF13237.12 (E=4e-08), Fer4_7 PF12838.13 (E=3e-12), Fer4_9 PF13187.12 (E=3e-07), Fer4 PF00037.33 (E=3e-09), Fer4_6 PF12837.13 (E=1e-05), Fer4_2 PF12797.13 (E=2e-05), Fer4_4 PF12800.13 (E=4e-04), Fer4_3 PF12798.13 (E=3e-03)
- (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_217669.1)
- Domains: Pfam-A via hmmscan --cut_ga — Fer4_10 (PF13237.12), Fer4_7 (PF12838.13), Fer4_9 (PF13187.12), Fer4 (PF00037.33), Fer4_6 (PF12837.13), Fer4_2 (PF12797.13), Fer4_4 (PF12800.13), Fer4_3 (PF12798.13)
- 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
COG1143 - Curated reference: UniProt P9WJG9 (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 —
249 functional partner(s); context anchor
nuoC - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_003351|Rv3153|nuoI MANTDRPALPHKRAVPPSRADSGPRRRRTKLLDAVAGFGVTLGSMFKKTVTEEYPERPGPVAARYHGRHQLNRYPDGLEKCIGCELCAWACPADAIYVEGADNTEEERFSPGERYGRVYQINYLRCIGCGLCIEACPTRALTMTYDYELADDNRADLIYEKDRLLAPLLPEMAAPPHPRAPGATDKDYYLGNVTAEGLRGVRESQTTGDSR