KEGG   PATHWAY: csci00300
Entry
csci00300                   Pathway                                
Name
Lysine biosynthesis - Clostridium scindens
Class
Metabolism; Amino acid metabolism
Pathway map
csci00300  Lysine biosynthesis
csci00300

Module
csci_M00526  Lysine biosynthesis, DAP dehydrogenase pathway, aspartate => lysine [PATH:csci00300]
csci_M00527  Lysine biosynthesis, DAP aminotransferase pathway, aspartate => lysine [PATH:csci00300]
Other DBs
GO: 0009085
Organism
Clostridium scindens [GN:csci]
Gene
HDCHBGLK_00025  lysC_1; Aspartokinase [KO:K00928] [EC:2.7.2.4]
HDCHBGLK_00027  hom_1; Homoserine dehydrogenase [KO:K00003] [EC:1.1.1.3]
HDCHBGLK_00036  dapB_1; 4-hydroxy-tetrahydrodipicolinate reductase [KO:K00215] [EC:1.17.1.8]
HDCHBGLK_00037  dapA; 4-hydroxy-tetrahydrodipicolinate synthase [KO:K01714] [EC:4.3.3.7]
HDCHBGLK_00342  dapB_2; 4-hydroxy-tetrahydrodipicolinate reductase [KO:K00215] [EC:1.17.1.8]
HDCHBGLK_01253  ddh; Meso-diaminopimelate D-dehydrogenase [KO:K03340] [EC:1.4.1.16]
HDCHBGLK_01423  murF; UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase [KO:K01929] [EC:6.3.2.10]
HDCHBGLK_01657  dapF_1; Diaminopimelate epimerase [KO:K01778] [EC:5.1.1.7]
HDCHBGLK_01658  dapL; LL-diaminopimelate aminotransferase [KO:K10206] [EC:2.6.1.83]
HDCHBGLK_01839  murE_1; UDP-N-acetylmuramoyl-L-alanyl-D-glutamate--2,6-diaminopimelate ligase [KO:K01928] [EC:6.3.2.13]
HDCHBGLK_02191  dapF_2; Diaminopimelate epimerase [KO:K01778] [EC:5.1.1.7]
HDCHBGLK_02310  argD; Acetylornithine aminotransferase [KO:K00821] [EC:2.6.1.11 2.6.1.17]
HDCHBGLK_02900  lysA; Diaminopimelate decarboxylase [KO:K01586] [EC:4.1.1.20]
HDCHBGLK_03060  yclM; Aspartokinase 3 [KO:K00928] [EC:2.7.2.4]
HDCHBGLK_03225  asd; Aspartate-semialdehyde dehydrogenase [KO:K00133] [EC:1.2.1.11]
HDCHBGLK_03404  hom_2; Homoserine dehydrogenase [KO:K00003] [EC:1.1.1.3]
HDCHBGLK_03727  lysC_2; Aspartokinase [KO:K00928] [EC:2.7.2.4]
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
csci00010  Glycolysis / Gluconeogenesis
csci00020  Citrate cycle (TCA cycle)
csci00250  Alanine, aspartate and glutamate metabolism
csci00260  Glycine, serine and threonine metabolism
csci00310  Lysine degradation
csci00550  Peptidoglycan biosynthesis
csci00620  Pyruvate metabolism
KO pathway
ko00300   

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