Rv2455c Family assigned · medium auto-curated
H37Rv Rv2455c · MTBC0 mtbc0_002614 ·
653 aa · 2778991–2780952 (-) ·
RefSeq NP_216971.1
Annotation: from legacy to revised
| Legacy (H37Rv / Mycobrowser) | 2-oxoglutarate oxidoreductase subunit KorA |
|---|---|
| MTBC0 PGAP re-annotation | 2-oxoacid:acceptor oxidoreductase subunit alpha |
| Revised (this work) | 2-oxoacid:acceptor oxidoreductase subunit alpha. Pfam: POR (PF01558.26), POR_N (PF01855.25), PFOR_II (PF17147.10). |
Auto-curated: this verdict and function were generated by rules from PGAP + Pfam + Foldseek and have not been hand-reviewed.
Curated reference (UniProt)
| UniProt |
O53182
SwissProt · reviewed
· Evidence at protein level
|
|---|---|
| UniProt name | 2-oxoglutarate oxidoreductase subunit KorA |
| EC (curated) |
EC 1.2.7.3
|
| Curated function | Component of KG oxidoreductase (KOR) that catalyzes the CoA-dependent oxidative decarboxylation of 2-oxoglutarate (alpha-ketoglutarate, KG) to succinyl-CoA. Methyl viologen can act as electron acceptor in vitro; the physiologic electron acceptor is unknown. Is involved in the alternative TCA pathway that functions concurrently with fatty acid beta-oxidation. Since a growing body of evidence indicates that lipids (for example cholesterol and fatty acids) are a predominant growth substrate for M.tuberculosis during infection, flux through KOR likely represents an important step in intermediary m. |
Functional vocabulary (eggNOG-mapper, orthology transfer)
| COG category |
C Energy production and conversion
|
|---|---|
| Preferred name | korA |
| eggNOG description | ferredoxin oxidoreductase |
| Orthologous group | COG0674 |
| EC number |
EC 1.2.7.11, EC 1.2.7.3
|
| KEGG orthology |
K00174
|
| KEGG pathways |
map00010, map00020, map00620, map00650, map00720, map01100, map01120, map01130, map01200
|
| KEGG modules |
M00009, M00011, M00173, M00620
|
| Gene Ontology (17) |
GO:0003674, GO:0003824, GO:0005575, GO:0005618, GO:0005623, GO:0005886, GO:0006950, GO:0006979, GO:0008150, GO:0008152, GO:0016020, GO:0016491 +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 | 0.465 · purifying |
|---|---|
| Polymorphic sites (≥ 0.1% of strains) | 6 synonymous, 8 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 |
|---|---|---|---|---|
POR | PF01558.26 | 1.7e-22 | 31–228 | Pyruvate ferredoxin/flavodoxin oxidoreductase |
POR_N | PF01855.25 | 1.9e-59 | 269–486 | Pyruvate flavodoxin/ferredoxin oxidoreductase, thiamine diP-bdg |
PFOR_II | PF17147.10 | 2.2e-07 | 526–612 | Pyruvate:ferredoxin oxidoreductase core domain II |
Functional interaction network (STRING v12, guilt-by-association)
Closest characterised functional partner: korB (2-oxoglutarate oxidoreductase subunit KorB), high confidence from genomic context alone (score 1000 excluding text-mining).
| Partner | Product | Score | No text-mining | Channels (≥400) |
|---|---|---|---|---|
Rv2454c korB |
2-oxoglutarate oxidoreductase subunit KorB | 999 | 1000 ctx | neighborhood:881 cooccurence:774 coexpression:989 experimental:999 database:900 textmining:932 |
Rv0066c icd2 |
isocitrate dehydrogenase | 987 | 975 | coexpression:668 database:900 textmining:516 |
Rv2540c aroF |
chorismate synthase | 968 | 967 | experimental:965 |
Rv0408 pta |
phosphate acetyltransferase | 987 | 953 ctx | neighborhood:544 database:900 textmining:745 |
Rv0952 sucD |
succinyl-CoA ligase subunit alpha | 979 | 948 | database:900 textmining:628 |
Rv0951 sucC |
succinyl-CoA ligase subunit beta | 979 | 946 | database:900 textmining:631 |
Rv0211 pckA |
phosphoenolpyruvate carboxykinase | 959 | 944 | coexpression:730 database:800 |
Rv3153 nuoI |
NADH-quinone oxidoreductase subunit I | 971 | 942 | coexpression:415 experimental:852 textmining:527 |
Rv3667 acs |
acetyl-CoAsynthetase | 964 | 929 | database:900 textmining:516 |
Rv3002c ilvN |
acetolactate synthase small subunit | 929 | 921 | database:900 |
Rv1617 pykA |
pyruvate kinase | 967 | 920 | database:900 textmining:617 |
Rv3285 accA3 |
bifunctional protein acetyl-/propionyl-CoA carboxylase subunit alpha AccA | 940 | 919 | database:900 |
Rv2501c accA1 |
acetyl/propionyl-CoA carboxylase subuit alpha | 939 | 918 | database:900 |
Rv3509c ilvX |
acetohydroxyacid synthase large subunit | 935 | 915 | database:900 |
Rv1820 ilvG |
acetolactate synthase large subunit IlvG | 935 | 914 | database:900 |
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: 2-oxoglutarate oxidoreductase subunit KorA
- MTBC0 PGAP product: 2-oxoacid:acceptor oxidoreductase subunit alpha
- Pfam (hmmscan --cut_ga): POR PF01558.26 (E=2e-22), POR_N PF01855.25 (E=2e-59), PFOR_II PF17147.10 (E=2e-07)
- (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_216971.1)
- Domains: Pfam-A via hmmscan --cut_ga — POR (PF01558.26), POR_N (PF01855.25), PFOR_II (PF17147.10)
- 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
COG0674 - Curated reference: UniProt O53182 (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 —
181 functional partner(s); context anchor
korB - Primary literature: none located yet; annotation rests on the domain/homology sources above.
Ancestral MTBC0 protein sequence
>mtbc0_002614|Rv2455c| MDPNGSGAGPESHDAAFHAAPDRQRLENVVIRFAGDSGDGMQLTGDRFTSEAALFGNDLATQPNYPAEIRAPAGTLPGVSSFQIQIADYDILTAGDRPDVLVAMNPAALKANIGDLPLGGMVIVNSDEFTKRNLTKVGYVTNPLESGELSDYVVHTVAMTTLTLGAVEAIGASKKDGQRAKNMFALGLLSWMYGRELEHSEAFIREKFARKPEIAEANVLALKAGWNYGETTEAFGTTYEIPPATLPPGEYRQISGNTALAYGIVVAGQLAGLPVVLGSYPITPASDILHELSKHKNFNVVTFQAEDEIGGICAALGAAYGGALGVTSTSGPGISLKSEALGLGVMTELPLLVIDVQRGGPSTGLPTKTEQADLLQALYGRNGESPVAVLAPRSPADCFETALEAVRIAVSYHTPVILLSDGAIANGSEPWRIPDVNALPPIKHTFAKPGEPFQPYARDRETLARQFAIPGTPGLEHRIGGLEAANGSGDISYEPTNHDLMVRLRQAKIDGIHVPDLEVDDPTGDAELLLIGWGSSYGPIGEACRRARRRGTKVAHAHLRYLNPFPANLGEVLRRYPKVVAPELNLGQLAQVLRGKYLVDVQSVTKVKGVSFLADEIGRFIRAALAGRLAELEQDKTLVARLSAATAGAGANG