KEGG   PATHWAY: ddh00300
Entry
ddh00300                    Pathway                                
Name
Lysine biosynthesis - Desulfitobacterium dehalogenans
Class
Metabolism; Amino acid metabolism
Pathway map
ddh00300  Lysine biosynthesis
ddh00300

Module
ddh_M00526  Lysine biosynthesis, DAP dehydrogenase pathway, aspartate => lysine [PATH:ddh00300]
ddh_M00527  Lysine biosynthesis, DAP aminotransferase pathway, aspartate => lysine [PATH:ddh00300]
Other DBs
GO: 0009085
Organism
Desulfitobacterium dehalogenans [GN:ddh]
Gene
Desde_1970  homoserine dehydrogenase [KO:K00003] [EC:1.1.1.3]
Desde_1306  homoserine dehydrogenase [KO:K00003] [EC:1.1.1.3]
Desde_2711  aspartokinase [KO:K00928] [EC:2.7.2.4]
Desde_3066  aspartate kinase [KO:K00928] [EC:2.7.2.4]
Desde_3067  aspartate-semialdehyde dehydrogenase [KO:K00133] [EC:1.2.1.11]
Desde_3065  dihydrodipicolinate synthase [KO:K01714] [EC:4.3.3.7]
Desde_0758  dihydrodipicolinate synthase [KO:K01714] [EC:4.3.3.7]
Desde_3070  dihydrodipicolinate reductase [KO:K00215] [EC:1.17.1.8]
Desde_0641  acetylornithine/succinylornithine aminotransferase [KO:K00821] [EC:2.6.1.11 2.6.1.17]
Desde_2228  dipeptidase, putative [KO:K01439] [EC:3.5.1.18]
Desde_3348  diaminopimelate epimerase [KO:K01778] [EC:5.1.1.7]
Desde_2567  aspartate/tyrosine/aromatic aminotransferase [KO:K10206] [EC:2.6.1.83]
Desde_3918  LL-diaminopimelate aminotransferase apoenzyme [KO:K10206] [EC:2.6.1.83]
Desde_4169  diaminopimelate decarboxylase [KO:K01586] [EC:4.1.1.20]
Desde_0169  diaminopimelate dehydrogenase [KO:K03340] [EC:1.4.1.16]
Desde_2754  transcriptional regulator with HTH domain and aminotransferase domain [KO:K05825] [EC:2.6.1.-]
Desde_3455  UDP-N-acetylmuramyl-tripeptide synthetase [KO:K01928] [EC:6.3.2.13]
Desde_3454  UDP-N-acetylmuramyl pentapeptide synthase [KO:K01929] [EC:6.3.2.10]
Desde_0574  pyrrolysine biosynthesis protein PylB [KO:K16180] [EC:5.4.99.58]
Desde_0575  pyrrolysine biosynthesis protein PylC [KO:K16181] [EC:6.3.2.59]
Desde_0576  pyrrolysine biosynthesis protein PylD [KO:K16182] [EC:1.4.1.-]
Compound
C00024  Acetyl-CoA
C00026  2-Oxoglutarate
C00047  L-Lysine
C00049  L-Aspartate
C00263  L-Homoserine
C00322  2-Oxoadipate
C00441  L-Aspartate 4-semialdehyde
C00449  N6-(L-1,3-Dicarboxypropyl)-L-lysine
C00666  LL-2,6-Diaminoheptanedioate
C00680  meso-2,6-Diaminoheptanedioate
C00956  L-2-Aminoadipate
C01251  (R)-2-Hydroxybutane-1,2,4-tricarboxylate
C03082  4-Phospho-L-aspartate
C03871  L-2-Amino-6-oxoheptanedioate
C03972  2,3,4,5-Tetrahydrodipicolinate
C04002  (Z)-But-1-ene-1,2,4-tricarboxylate
C04076  L-2-Aminoadipate 6-semialdehyde
C04390  N6-Acetyl-LL-2,6-diaminoheptanedioate
C04421  N-Succinyl-LL-2,6-diaminoheptanedioate
C04462  N-Succinyl-2-L-amino-6-oxoheptanedioate
C04877  UDP-N-acetylmuramoyl-L-alanyl-gamma-D-glutamyl-meso-2,6-diaminopimelate
C04882  UDP-N-acetylmuramoyl-L-alanyl-D-glutamyl-6-carboxy-L-lysyl-D-alanyl-D-alanine
C05535  alpha-Aminoadipoyl-S-acyl enzyme
C05539  N-Acetyl-L-2-amino-6-oxopimelate
C05560  L-2-Aminoadipate adenylate
C05662  Homoisocitrate
C16138  L-Pyrrolysine
C19886  LysW-gamma-L-alpha-aminoadipate
C19887  LysW-gamma-L-alpha-aminoadipyl 6-phosphate
C19888  LysW-gamma-L-alpha-aminoadipate 6-semialdehyde
C19889  LysW-gamma-L-lysine
C20258  (2S,4S)-4-Hydroxy-2,3,4,5-tetrahydrodipicolinate
C20277  (2R,3R)-3-Methylornithine
C20278  (2R,3R)-3-Methylornithinyl-N6-lysine
C20279  (2R,3R)-3-Methylglutamyl-5-semialdehyde-N6-lysine
Reference
PMID:10074354
  Authors
Ledwidge R, Blanchard JS.
  Title
The dual biosynthetic capability of N-acetylornithine aminotransferase in arginine and lysine biosynthesis.
  Journal
Biochemistry 38:3019-3024 (1999)
DOI:10.1021/bi982574a
Reference
PMID:10850974
  Authors
Fuchs TM, Schneider B, Krumbach K, Eggeling L, Gross R.
  Title
Characterization of a bordetella pertussis diaminopimelate (DAP) biosynthesis locus identifies dapC, a novel gene coding for an N-succinyl-L,L-DAP aminotransferase.
  Journal
J Bacteriol 182:3626-3631 (2000)
DOI:10.1128/JB.182.13.3626-3631.2000
Reference
PMID:10714900
  Authors
Zabriskie TM, Jackson MD.
  Title
Lysine biosynthesis and metabolism in fungi.
  Journal
Nat Prod Rep 17:85-97 (2000)
DOI:10.1039/A801345D
Reference
PMID:14627808
  Authors
Rodionov DA, Vitreschak AG, Mironov AA, Gelfand MS.
  Title
Regulation of lysine biosynthesis and transport genes in bacteria: yet another RNA riboswitch?
  Journal
Nucleic Acids Res 31:6748-57 (2003)
DOI:10.1093/nar/gkg900
Reference
PMID:12355264
  Authors
Velasco AM, Leguina JI, Lazcano A.
  Title
Molecular evolution of the lysine biosynthetic pathways.
  Journal
J Mol Evol 55:445-59 (2002)
DOI:10.1007/s00239-002-2340-2
Reference
PMID:15256574
  Authors
Miyazaki T, Miyazaki J, Yamane H, Nishiyama M.
  Title
alpha-Aminoadipate aminotransferase from an extremely thermophilic bacterium, Thermus thermophilus.
  Journal
Microbiology 150:2327-34 (2004)
DOI:10.1099/mic.0.27037-0
Reference
PMID:12126930
  Authors
Goh DL, Patel A, Thomas GH, Salomons GS, Schor DS, Jakobs C, Geraghty MT.
  Title
Characterization of the human gene encoding alpha-aminoadipate aminotransferase (AADAT).
  Journal
Mol Genet Metab 76:172-80 (2002)
DOI:10.1016/S1096-7192(02)00037-9
Reference
PMID:15160885
  Authors
Nishiyama M.
  Title
[Novel lysine biosynthesis: a key to elucidate evolution of metabolic and biosynthetic pathways]
  Journal
Tanpakushitsu Kakusan Koso 49:758-63 (2004)
Reference
PMID:10613839
  Authors
Nishida H, Nishiyama M, Kobashi N, Kosuge T, Hoshino T, Yamane H.
  Title
A prokaryotic gene cluster involved in synthesis of lysine through the amino adipate pathway: a key to the evolution of amino acid biosynthesis.
  Journal
Genome Res 9:1175-83 (1999)
DOI:10.1101/gr.9.12.1175
Reference
PMID:12963379
  Authors
Sakai H, Vassylyeva MN, Matsuura T, Sekine S, Gotoh K, Nishiyama M, Terada T, Shirouzu M, Kuramitsu S, Vassylyev DG, Yokoyama S.
  Title
Crystal structure of a lysine biosynthesis enzyme, LysX, from Thermus thermophilus HB8.
  Journal
J Mol Biol 332:729-40 (2003)
DOI:10.1016/S0022-2836(03)00946-X
Reference
PMID:16361515
  Authors
Hudson AO, Singh BK, Leustek T, Gilvarg C.
  Title
An LL-diaminopimelate aminotransferase defines a novel variant of the lysine biosynthesis pathway in plants.
  Journal
Plant Physiol 140:292-301 (2006)
DOI:10.1104/pp.105.072629
Reference
PMID:19620981
  Authors
Horie A, Tomita T, Saiki A, Kono H, Taka H, Mineki R, Fujimura T, Nishiyama C, Kuzuyama T, Nishiyama M
  Title
Discovery of proteinaceous N-modification in lysine biosynthesis of Thermus thermophilus.
  Journal
Nat Chem Biol 5:673-9 (2009)
DOI:10.1038/nchembio.198
Reference
PMID:21547300
  Authors
Dairi T, Kuzuyama T, Nishiyama M, Fujii I
  Title
Convergent strategies in biosynthesis.
  Journal
Nat Prod Rep 28:1054-86 (2011)
DOI:10.1039/c0np00047g
Reference
PMID:21550296
  Authors
Gaston MA, Jiang R, Krzycki JA
  Title
Functional context, biosynthesis, and genetic encoding of pyrrolysine.
  Journal
Curr Opin Microbiol 14:342-9 (2011)
DOI:10.1016/j.mib.2011.04.001
Related
pathway
ddh00010  Glycolysis / Gluconeogenesis
ddh00020  Citrate cycle (TCA cycle)
ddh00250  Alanine, aspartate and glutamate metabolism
ddh00260  Glycine, serine and threonine metabolism
ddh00310  Lysine degradation
ddh00550  Peptidoglycan biosynthesis
ddh00620  Pyruvate metabolism
KO pathway
ko00300   
LinkDB

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