KEGG   PATHWAY: amyy00630
Entry
amyy00630                   Pathway                                
Name
Glyoxylate and dicarboxylate metabolism - Amycolatopsis sp. YIM 10
Class
Metabolism; Carbohydrate metabolism
Pathway map
amyy00630  Glyoxylate and dicarboxylate metabolism
amyy00630

Module
amyy_M00012  Glyoxylate cycle [PATH:amyy00630]
amyy_M00621  Glycine cleavage system [PATH:amyy00630]
amyy_M00741  Propanoyl-CoA metabolism, propanoyl-CoA => succinyl-CoA [PATH:amyy00630]
Other DBs
GO: 0046487 0043648
Organism
Amycolatopsis sp. YIM 10 [GN:amyy]
Gene
YIM_09420  icl; Isocitrate lyase [KO:K01637] [EC:4.1.3.1]
YIM_02300  acsA2; Acetyl-coenzyme A synthetase [KO:K01895] [EC:6.2.1.1]
YIM_22955  acsA4; Acetyl-coenzyme A synthetase [KO:K01895] [EC:6.2.1.1]
YIM_27790  acsA5; Acetyl-coenzyme A synthetase [KO:K01895] [EC:6.2.1.1]
YIM_32790  acsA6; Acetyl-coenzyme A synthetase [KO:K01895] [EC:6.2.1.1]
YIM_09425  aceB1; Malate synthase [KO:K01638] [EC:2.3.3.9]
YIM_11170  aceB2; Malate synthase [KO:K01638] [EC:2.3.3.9]
YIM_24290  mdh1; Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
YIM_03835  citA; Citrate synthase 1 [KO:K01647] [EC:2.3.3.1]
YIM_03930  gltA2; Citrate synthase 1 [KO:K01647] [EC:2.3.3.1]
YIM_23285  dmdA; 2,3-dimethylmalate dehydratase large subunit [KO:K01681] [EC:4.2.1.3]
YIM_27630  acnA; Aconitate hydratase [KO:K01681] [EC:4.2.1.3]
YIM_47300  fadI; 3-ketoacyl-CoA thiolase [KO:K00626] [EC:2.3.1.9]
YIM_09040  putative acetyl-CoA acetyltransferase [KO:K00626] [EC:2.3.1.9]
YIM_05010  fadA1; 3-ketoacyl-CoA thiolase [KO:K00626] [EC:2.3.1.9]
YIM_05915  fadA2; Putative acyltransferase [KO:K00626] [EC:2.3.1.9]
YIM_14515  fadA3; Putative acyltransferase [KO:K00626] [EC:2.3.1.9]
YIM_14530  acetyl-CoA acetyltransferase [KO:K00626] [EC:2.3.1.9]
YIM_21940  acetyl-CoA acetyltransferase [KO:K00626] [EC:2.3.1.9]
YIM_20775  caiD2; Carnitinyl-CoA dehydratase [KO:K00626] [EC:2.3.1.9]
YIM_33185  paaJ3; 3-oxoadipyl-CoA/3-oxo-5,6-dehydrosuberyl-CoA thiolase [KO:K00626] [EC:2.3.1.9]
YIM_09035  Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily protein [KO:K05606] [EC:5.1.99.1]
YIM_06440  scpA1; Methylmalonyl-CoA mutase [KO:K14447] [EC:5.4.99.63]
YIM_00345  mcl2; Malyl-CoA lyase [KO:K08691] [EC:4.1.3.24 4.1.3.25]
YIM_42695  accD6; putative propionyl-CoA carboxylase beta chain 5 [KO:K01966] [EC:6.4.1.3 2.1.3.15]
YIM_42995  accC2; Biotin carboxylase [KO:K11263] [EC:6.4.1.2 6.4.1.3 6.3.4.14]
YIM_42900  accD7; putative propionyl-CoA carboxylase beta chain 5 [KO:K27094] [EC:6.4.1.3 6.4.1.- 2.1.3.15]
YIM_42905  hypothetical protein [KO:K27095]
YIM_40755  hypothetical protein [KO:K27095]
YIM_40295  accD4; putative propionyl-CoA carboxylase beta chain 6 [KO:K18472] [EC:6.4.1.2 6.4.1.3 2.1.3.15]
YIM_18740  accD2; putative propionyl-CoA carboxylase beta chain 6 [KO:K18472] [EC:6.4.1.2 6.4.1.3 2.1.3.15]
YIM_43075  mutB; Methylmalonyl-CoA mutase large subunit [KO:K01847] [EC:5.4.99.2]
YIM_43080  mutA; Methylmalonyl-CoA mutase small subunit [KO:K01847] [EC:5.4.99.2]
YIM_11505  mutE; Methylaspartate mutase E chain [KO:K19268] [EC:5.4.99.1]
YIM_11500  methylaspartate mutase subunit S [KO:K01846] [EC:5.4.99.1]
YIM_46805  putative FAD-linked oxidoreductase [KO:K00104] [EC:1.1.99.14]
YIM_19205  putative FAD-linked oxidoreductase [KO:K00104] [EC:1.1.99.14]
YIM_05955  putative FAD-linked oxidoreductase [KO:K00104] [EC:1.1.99.14]
YIM_26130  putative FAD-linked oxidoreductase [KO:K00104] [EC:1.1.99.14]
YIM_02085  katA; Catalase [KO:K03781] [EC:1.11.1.6]
YIM_10360  Putative 2-hydroxyacid dehydrogenase [KO:K00015] [EC:1.1.1.26]
YIM_03620  gph1; Phosphoglycolate phosphatase [KO:K01091] [EC:3.1.3.18]
YIM_45755  gph5; Phosphoglycolate phosphatase [KO:K01091] [EC:3.1.3.18]
YIM_11885  gph2; Phosphoglycolate phosphatase [KO:K01091] [EC:3.1.3.18]
YIM_16680  phnX; Phosphonoacetaldehyde hydrolase [KO:K01091] [EC:3.1.3.18]
YIM_16350  Soluble hydrogenase 42 kDa subunit [KO:K00830] [EC:2.6.1.44 2.6.1.45 2.6.1.51]
YIM_26680  Soluble hydrogenase 42 kDa subunit [KO:K00830] [EC:2.6.1.44 2.6.1.45 2.6.1.51]
YIM_10570  glnA3; putative glutamine synthetase 2 [KO:K01915] [EC:6.3.1.2]
YIM_06610  glnA1; putative glutamine synthetase 2 [KO:K01915] [EC:6.3.1.2]
YIM_06655  glnA2; Glutamine synthetase 1 [KO:K01915] [EC:6.3.1.2]
YIM_30760  puuA; Gamma-glutamylputrescine synthetase PuuA [KO:K01915] [EC:6.3.1.2]
YIM_30935  glnA4; Glutamine synthetase [KO:K01915] [EC:6.3.1.2]
YIM_10605  glyA2; Serine hydroxymethyltransferase 2 [KO:K00600] [EC:2.1.2.1]
YIM_02555  glyA1; Serine hydroxymethyltransferase [KO:K00600] [EC:2.1.2.1]
YIM_25600  glyA4; Serine hydroxymethyltransferase 2 [KO:K00600] [EC:2.1.2.1]
YIM_20505  glyA3; Serine hydroxymethyltransferase [KO:K00600] [EC:2.1.2.1]
YIM_10590  gcvP; Glycine dehydrogenase (decarboxylating) [KO:K00281] [EC:1.4.4.2]
YIM_10595  gcvT1; Aminomethyltransferase [KO:K00605] [EC:2.1.2.10]
YIM_10820  lpdC; Dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
YIM_12220  pdhD; Dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
YIM_10600  gcvH1; Glycine cleavage system H protein [KO:K02437]
YIM_27770  gcvH2; Glycine cleavage system H protein [KO:K02437]
YIM_19240  gcl2; Glyoxylate carboligase [KO:K01608] [EC:4.1.1.47]
YIM_16375  gcl1; Glyoxylate carboligase [KO:K01608] [EC:4.1.1.47]
YIM_19250  hyi3; Hydroxypyruvate isomerase [KO:K01816] [EC:5.3.1.22]
YIM_16315  hyi1; Hydroxypyruvate isomerase [KO:K01816] [EC:5.3.1.22]
YIM_16365  hyi2; Hydroxypyruvate isomerase [KO:K01816] [EC:5.3.1.22]
YIM_32630  glxR2; 2-hydroxy-3-oxopropionate reductase [KO:K00042] [EC:1.1.1.60]
YIM_19245  garR3; 2-hydroxy-3-oxopropionate reductase [KO:K00042] [EC:1.1.1.60]
YIM_19005  garR2; 2-hydroxy-3-oxopropionate reductase [KO:K00042] [EC:1.1.1.60]
YIM_16370  garR1; 2-hydroxy-3-oxopropionate reductase [KO:K00042] [EC:1.1.1.60]
YIM_19235  garK2; Glycerate 2-kinase [KO:K00865] [EC:2.7.1.165]
YIM_10355  garK1; Glycerate 2-kinase [KO:K00865] [EC:2.7.1.165]
YIM_16205  glxK1; Glycerate kinase [KO:K00865] [EC:2.7.1.165]
YIM_16380  glxK2; Glycerate kinase [KO:K00865] [EC:2.7.1.165]
YIM_30430  garK3; Glycerate 2-kinase [KO:K00865] [EC:2.7.1.165]
YIM_40120  ttuC; putative tartrate dehydrogenase/decarboxylase TtuC [KO:K07246] [EC:1.1.1.93 4.1.1.73 1.1.1.83]
YIM_05980  dmlA; D-malate dehydrogenase [decarboxylating] [KO:K07246] [EC:1.1.1.93 4.1.1.73 1.1.1.83]
YIM_16200  Tartrate dehydrogenase/decarboxylase [KO:K07246] [EC:1.1.1.93 4.1.1.73 1.1.1.83]
YIM_13105  eda; KHG/KDPG aldolase [KO:K01625] [EC:4.1.2.14 4.1.3.42]
YIM_05720  kgd; Multifunctional 2-oxoglutarate metabolism enzyme [KO:K01616] [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]
YIM_19380  Formate dehydrogenase [KO:K00122] [EC:1.17.1.9]
YIM_19080  NADH-dependent formate dehydrogenase delta subunit FdsD [KO:K00126] [EC:1.17.1.9]
YIM_19085  Putative formate dehydrogenase [KO:K00123] [EC:1.17.1.9]
YIM_19090  hndC; NADP-reducing hydrogenase subunit HndC [KO:K00124]
YIM_19095  hndA; NADP-reducing hydrogenase subunit HndA [KO:K00127]
YIM_25120  nlhH6; Carboxylesterase NlhH [KO:K01432] [EC:3.5.1.9]
YIM_45500  purU2; Formyltetrahydrofolate deformylase [KO:K01433] [EC:3.5.1.10]
YIM_25560  purU1; Formyltetrahydrofolate deformylase [KO:K01433] [EC:3.5.1.10]
YIM_19030  frc3; Formyl-coenzyme A 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
amyy00010  Glycolysis / Gluconeogenesis
amyy00020  Citrate cycle (TCA cycle)
amyy00030  Pentose phosphate pathway
amyy00053  Ascorbate and aldarate metabolism
amyy00071  Fatty acid degradation
amyy00230  Purine metabolism
amyy00250  Alanine, aspartate and glutamate metabolism
amyy00260  Glycine, serine and threonine metabolism
amyy00620  Pyruvate metabolism
amyy00710  Carbon fixation by Calvin cycle
amyy00750  Vitamin B6 metabolism
amyy00910  Nitrogen metabolism
KO pathway
ko00630   
LinkDB

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