KEGG   PATHWAY: vap00630
Entry
vap00630                    Pathway                                
Name
Glyoxylate and dicarboxylate metabolism - Variovorax paradoxus S110
Class
Metabolism; Carbohydrate metabolism
Pathway map
vap00630  Glyoxylate and dicarboxylate metabolism
vap00630

Module
vap_M00012  Glyoxylate cycle [PATH:vap00630]
vap_M00621  Glycine cleavage system [PATH:vap00630]
Other DBs
GO: 0046487 0043648
Organism
Variovorax paradoxus S110 [GN:vap]
Gene
Vapar_1869  isocitrate lyase [KO:K01637] [EC:4.1.3.1]
Vapar_6251  acetate/CoA ligase [KO:K01895] [EC:6.2.1.1]
Vapar_2526  acetate/CoA ligase [KO:K01895] [EC:6.2.1.1]
Vapar_5367  acetate/CoA ligase [KO:K01895] [EC:6.2.1.1]
Vapar_0452  malate synthase G [KO:K01638] [EC:2.3.3.9]
Vapar_1432  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
Vapar_5653  citrate synthase [KO:K01647] [EC:2.3.3.1]
Vapar_5753  Citrate synthase [KO:K01647] [EC:2.3.3.1]
Vapar_4823  citrate synthase [KO:K01647] [EC:2.3.3.1]
Vapar_1425  citrate synthase I [KO:K01647] [EC:2.3.3.1]
Vapar_1313  citrate synthase [KO:K01647] [EC:2.3.3.1]
Vapar_1440  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
Vapar_6188  aconitate hydratase domain protein [KO:K01681] [EC:4.2.1.3]
Vapar_1436  aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
Vapar_5341  acetyl-CoA acetyltransferase [KO:K00626] [EC:2.3.1.9]
Vapar_2023  acetyl-CoA acetyltransferase [KO:K00626] [EC:2.3.1.9]
Vapar_5873  acetyl-CoA acetyltransferase [KO:K00626] [EC:2.3.1.9]
Vapar_4732  acetyl-CoA acetyltransferase [KO:K00626] [EC:2.3.1.9]
Vapar_5670  Propanoyl-CoA C-acyltransferase [KO:K00626] [EC:2.3.1.9]
Vapar_1841  acetyl-CoA acetyltransferase [KO:K00626] [EC:2.3.1.9]
Vapar_2923  acetyl-CoA acetyltransferase [KO:K00626] [EC:2.3.1.9]
Vapar_0445  acetyl-CoA acetyltransferase [KO:K00626] [EC:2.3.1.9]
Vapar_5357  acetyl-CoA acetyltransferase [KO:K00626] [EC:2.3.1.9]
Vapar_0843  acetyl-CoA acetyltransferase [KO:K00626] [EC:2.3.1.9]
Vapar_5342  acetoacetyl-CoA reductase [KO:K00023] [EC:1.1.1.36]
Vapar_2031  acetoacetyl-CoA reductase [KO:K00023] [EC:1.1.1.36]
Vapar_2131  acetyl-CoA carboxylase, biotin carboxylase [KO:K01965] [EC:6.4.1.3]
Vapar_2130  carboxyl transferase [KO:K01966] [EC:6.4.1.3 2.1.3.15]
Vapar_2127  methylmalonyl-CoA mutase, large subunit [KO:K01847] [EC:5.4.99.2]
Vapar_0222  FAD linked oxidase domain protein [KO:K00104] [EC:1.1.99.14]
Vapar_0223  FAD linked oxidase domain protein [KO:K11472] [EC:1.1.99.14]
Vapar_0224  protein of unknown function DUF224 cysteine-rich region domain protein [KO:K11473] [EC:1.1.99.14]
Vapar_5463  Catalase [KO:K03781] [EC:1.11.1.6]
Vapar_0778  Catalase [KO:K03781] [EC:1.11.1.6]
Vapar_5439  Catalase [KO:K03781] [EC:1.11.1.6]
Vapar_2010  Catalase [KO:K03781] [EC:1.11.1.6]
Vapar_0501  Catalase [KO:K03781] [EC:1.11.1.6]
Vapar_5630  D-isomer specific 2-hydroxyacid dehydrogenase NAD-binding [KO:K12972] [EC:1.1.1.79 1.1.1.81]
Vapar_4717  D-isomer specific 2-hydroxyacid dehydrogenase NAD-binding [KO:K12972] [EC:1.1.1.79 1.1.1.81]
Vapar_5231  D-isomer specific 2-hydroxyacid dehydrogenase NAD-binding [KO:K12972] [EC:1.1.1.79 1.1.1.81]
Vapar_1774  D-isomer specific 2-hydroxyacid dehydrogenase NAD-binding [KO:K00090] [EC:1.1.1.79 1.1.1.81 1.1.1.215]
Vapar_3027  HAD-superfamily hydrolase, subfamily IA, variant 3 [KO:K01091] [EC:3.1.3.18]
Vapar_1380  HAD-superfamily hydrolase, subfamily IA, variant 1 [KO:K01091] [EC:3.1.3.18]
Vapar_0571  phosphoglycolate phosphatase [KO:K01091] [EC:3.1.3.18]
Vapar_3032  Ribulose-bisphosphate carboxylase [KO:K01601] [EC:4.1.1.39]
Vapar_3031  Ribulose-bisphosphate carboxylase [KO:K01602] [EC:4.1.1.39]
Vapar_2906  aminotransferase class V [KO:K00830] [EC:2.6.1.44 2.6.1.45 2.6.1.51]
Vapar_1632  glutamine synthetase, type I [KO:K01915] [EC:6.3.1.2]
Vapar_0929  Glycine hydroxymethyltransferase [KO:K00600] [EC:2.1.2.1]
Vapar_3100  Glycine hydroxymethyltransferase [KO:K00600] [EC:2.1.2.1]
Vapar_3301  glycine dehydrogenase [KO:K00281] [EC:1.4.4.2]
Vapar_3299  glycine cleavage system T protein [KO:K00605] [EC:2.1.2.10]
Vapar_5336  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Vapar_2165  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Vapar_2173  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Vapar_3300  glycine cleavage system H protein [KO:K02437]
Vapar_3954  glyoxylate carboligase [KO:K01608] [EC:4.1.1.47]
Vapar_3955  hydroxypyruvate isomerase [KO:K01816] [EC:5.3.1.22]
Vapar_3337  2-hydroxy-3-oxopropionate reductase [KO:K00042] [EC:1.1.1.60]
Vapar_3956  2-hydroxy-3-oxopropionate reductase [KO:K00042] [EC:1.1.1.60]
Vapar_4815  2-hydroxy-3-oxopropionate reductase [KO:K00042] [EC:1.1.1.60]
Vapar_3921  Hydroxypyruvate reductase [KO:K11529] [EC:2.7.1.165]
Vapar_5614  hydro-lyase, Fe-S type, tartrate/fumarate subfamily, alpha subunit [KO:K03779] [EC:4.2.1.32]
Vapar_5613  Fe-S type hydro-lyase tartrate/fumarate beta region [KO:K03780] [EC:4.2.1.32]
Vapar_1027  tartrate dehydrogenase [KO:K07246] [EC:1.1.1.93 4.1.1.73 1.1.1.83]
Vapar_5638  tartrate dehydrogenase [KO:K07246] [EC:1.1.1.93 4.1.1.73 1.1.1.83]
Vapar_1788  tartrate dehydrogenase [KO:K07246] [EC:1.1.1.93 4.1.1.73 1.1.1.83]
Vapar_3707  2-dehydro-3-deoxyphosphogluconate aldolase/4-hydroxy-2-oxoglutarate aldolase [KO:K01625] [EC:4.1.2.14 4.1.3.42]
Vapar_3021  formate dehydrogenase delta subunit [KO:K00126] [EC:1.17.1.9]
Vapar_3019  formate dehydrogenase, alpha subunit [KO:K00123] [EC:1.17.1.9]
Vapar_4062  molybdopterin oxidoreductase [KO:K00123] [EC:1.17.1.9]
Vapar_4072  formate dehydrogenase, alpha subunit [KO:K00123] [EC:1.17.1.9]
Vapar_4073  Respiratory-chain NADH dehydrogenase domain 51 kDa subunit [KO:K22515] [EC:1.17.1.9]
Vapar_3018  NADH dehydrogenase (quinone) [KO:K00124]
Vapar_4061  4Fe-4S ferredoxin iron-sulfur binding domain protein [KO:K00124]
Vapar_3017  NADH dehydrogenase (ubiquinone) 24 kDa subunit [KO:K00127]
Vapar_4059  formate dehydrogenase, gamma subunit [KO:K00127]
Vapar_1533  conserved hypothetical protein [KO:K01432] [EC:3.5.1.9]
Vapar_1449  arylformamidase [KO:K07130] [EC:3.5.1.9]
Vapar_4789  formyltetrahydrofolate deformylase [KO:K01433] [EC:3.5.1.10]
Vapar_3140  Formamidase [KO:K01455] [EC:3.5.1.49]
Vapar_0166  N-formylglutamate amidohydrolase [KO:K01458] [EC:3.5.1.68]
Vapar_4487  oxalyl-CoA decarboxylase [KO:K01577] [EC:4.1.1.8]
Vapar_4484  formyl-CoA transferase [KO:K07749] [EC:2.8.3.16]
Vapar_4486  formyl-CoA transferase [KO:K07749] [EC:2.8.3.16]
Compound
C00007  Oxygen
C00011  CO2
C00014  Ammonia
C00022  Pyruvate
C00024  Acetyl-CoA
C00025  L-Glutamate
C00026  2-Oxoglutarate
C00027  Hydrogen peroxide
C00033  Acetate
C00036  Oxaloacetate
C00037  Glycine
C00042  Succinate
C00048  Glyoxylate
C00058  Formate
C00064  L-Glutamine
C00065  L-Serine
C00091  Succinyl-CoA
C00100  Propanoyl-CoA
C00111  Glycerone phosphate
C00136  Butanoyl-CoA
C00149  (S)-Malate
C00158  Citrate
C00160  Glycolate
C00168  Hydroxypyruvate
C00197  3-Phospho-D-glycerate
C00209  Oxalate
C00258  D-Glycerate
C00266  Glycolaldehyde
C00311  Isocitrate
C00313  Oxalyl-CoA
C00332  Acetoacetyl-CoA
C00417  cis-Aconitate
C00552  meso-Tartaric acid
C00631  2-Phospho-D-glycerate
C00683  (S)-Methylmalonyl-CoA
C00798  Formyl-CoA
C00877  Crotonoyl-CoA
C00888  Pentanoyl-CoA
C00898  (R,R)-Tartaric acid
C00975  Dihydroxyfumarate
C00988  2-Phosphoglycolate
C01127  4-Hydroxy-2-oxoglutarate
C01146  2-Hydroxy-3-oxopropanoate
C01182  D-Ribulose 1,5-bisphosphate
C01213  (R)-Methylmalonyl-CoA
C01380  Ethylene glycol
C01732  Mesaconate
C01989  3-Ethylmalate
C01990  3-Oxalomalate
C02123  3-Propylmalate
C02405  Formyl phosphate
C03217  2-Hydroxy-3-oxoadipate
C03459  2-Hydroxy-3-oxosuccinate
C03548  trans-2,3-Epoxysuccinate
C03561  (R)-3-Hydroxybutanoyl-CoA
C03618  L-threo-3-Methylaspartate
C04348  L-Malyl-CoA
C06027  L-erythro-3-Methylmalyl-CoA
C06028  2-Methylfumaryl-CoA
C06049  N-Formylderivatives
C18026  (2S)-Ethylmalonyl-CoA
C18324  (2S)-Methylsuccinyl-CoA
C20238  (2R)-Ethylmalonyl-CoA
C22337  D-Ribulose 1-phosphate
Reference
PMID:10978349
  Authors
Njau RK, Herndon CA, Hawes JW.
  Title
Novel beta-hydroxyacid dehydrogenases in Escherichia coli and Haemophilus influenzae.
  Journal
J Biol Chem 275:38780-6 (2000)
DOI:10.1074/jbc.M007432200
Reference
PMID:18065535
  Authors
Zarzycki J, Schlichting A, Strychalsky N, Muller M, Alber BE, Fuchs G
  Title
Mesaconyl-coenzyme A hydratase, a new enzyme of two central carbon metabolic pathways in bacteria.
  Journal
J Bacteriol 190:1366-74 (2008)
DOI:10.1128/JB.01621-07
Reference
PMID:18819910
  Authors
Erb TJ, Retey J, Fuchs G, Alber BE
  Title
Ethylmalonyl-CoA mutase from Rhodobacter sphaeroides defines a new subclade of coenzyme B12-dependent acyl-CoA mutases.
  Journal
J Biol Chem 283:32283-93 (2008)
DOI:10.1074/jbc.M805527200
Reference
PMID:9596633
  Authors
Coschigano KT, Melo-Oliveira R, Lim J, Coruzzi GM
  Title
Arabidopsis gls mutants and distinct Fd-GOGAT genes. Implications for photorespiration and primary nitrogen assimilation.
  Journal
Plant Cell 10:741-52 (1998)
DOI:10.1105/tpc.10.5.741
Reference
PMID:16407450
  Authors
Masclaux-Daubresse C, Reisdorf-Cren M, Pageau K, Lelandais M, Grandjean O, Kronenberger J, Valadier MH, Feraud M, Jouglet T, Suzuki A
  Title
Glutamine synthetase-glutamate synthase pathway and glutamate dehydrogenase play distinct roles in the sink-source nitrogen cycle in tobacco.
  Journal
Plant Physiol 140:444-56 (2006)
DOI:10.1104/pp.105.071910
Reference
PMID:21252347
  Authors
Khomyakova M, Bukmez O, Thomas LK, Erb TJ, Berg IA
  Title
A methylaspartate cycle in haloarchaea.
  Journal
Science 331:334-7 (2011)
DOI:10.1126/science.1196544
Reference
PMID:11513957
  Authors
Serrano JA, Bonete MJ
  Title
Sequencing, phylogenetic and transcriptional analysis of the glyoxylate bypass operon (ace) in the halophilic archaeon Haloferax volcanii.
  Journal
Biochim Biophys Acta 1520:154-62 (2001)
DOI:10.1016/S0167-4781(01)00263-9
Related
pathway
vap00010  Glycolysis / Gluconeogenesis
vap00020  Citrate cycle (TCA cycle)
vap00030  Pentose phosphate pathway
vap00053  Ascorbate and aldarate metabolism
vap00071  Fatty acid degradation
vap00230  Purine metabolism
vap00250  Alanine, aspartate and glutamate metabolism
vap00260  Glycine, serine and threonine metabolism
vap00620  Pyruvate metabolism
vap00710  Carbon fixation by Calvin cycle
vap00750  Vitamin B6 metabolism
vap00910  Nitrogen metabolism
KO pathway
ko00630   
LinkDB

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