KEGG   PATHWAY: sil00260
Entry
sil00260                    Pathway                                
Name
Glycine, serine and threonine metabolism - Ruegeria pomeroyi
Description
Serine is derived from 3-phospho-D-glycerate, an intermediate of glycolysis [MD:M00020], and glycine is derived from serine. Threonine is an essential amino acid, which animals cannot synthesize. In bacteria and plants, threonine is derived from aspartate [MD:M00018].
Class
Metabolism; Amino acid metabolism
Pathway map
sil00260  Glycine, serine and threonine metabolism
sil00260

Module
sil_M00020  Serine biosynthesis, glycerate-3P => serine [PATH:sil00260]
sil_M00555  Betaine biosynthesis, choline => betaine [PATH:sil00260]
sil_M00621  Glycine cleavage system [PATH:sil00260]
sil_M00919  Ectoine degradation, ectoine => aspartate [PATH:sil00260]
Other DBs
GO: 0006544 0006563 0070178 0006566
Organism
Ruegeria pomeroyi [GN:sil]
Gene
SPO3035  aspartate kinase, monofunctional class [KO:K00928] [EC:2.7.2.4]
SPO3712  asd; aspartate-semialdehyde dehydrogenase [KO:K00133] [EC:1.2.1.11]
SPO1734  hom; homoserine dehydrogenase [KO:K00003] [EC:1.1.1.3]
SPO3071  thrC; threonine synthase [KO:K01733] [EC:4.2.3.1]
SPO3156  L-threonine aldolase, low-specificity, putative [KO:K01620] [EC:4.1.2.48]
SPO3529  glyA-3; serine hydroxymethyltransferase [KO:K00600] [EC:2.1.2.1]
SPO2940  glyA-2; serine hydroxymethyltransferase [KO:K00600] [EC:2.1.2.1]
SPO1572  glyA-1; serine hydroxymethyltransferase [KO:K00600] [EC:2.1.2.1]
SPO3029  serine--glyoxylate transaminase, putative [KO:K00830] [EC:2.6.1.44 2.6.1.45 2.6.1.51]
SPOA0144  serine--glyoxylate transaminase, putative [KO:K00830] [EC:2.6.1.44 2.6.1.45 2.6.1.51]
SPO0415  D-isomer specific 2-hydroxyacid dehydrogenase family protein [KO:K12972] [EC:1.1.1.79 1.1.1.81]
SPO1564  MOFRL domain protein [KO:K11529] [EC:2.7.1.165]
SPO2993  MOFRL family protein [KO:K11529] [EC:2.7.1.165]
SPO3810  gpmI; 2,3-bisphosphoglycerate-independent phosphoglycerate mutase [KO:K15633] [EC:5.4.2.12]
SPO3355  serA; D-3-phosphoglycerate dehydrogenase [KO:K00058] [EC:1.1.1.95 1.1.1.399]
SPO3354  phosphoserine aminotransferase [KO:K00831] [EC:2.6.1.52]
SPO2363  serB-1; phosphoserine phosphatase [KO:K01079] [EC:3.1.3.3]
SPO3353  serB-2; phosphoserine phosphatase [KO:K01079] [EC:3.1.3.3]
SPO3360  kbl; 2-amino-3-ketobutyrate coenzyme A ligase [KO:K00639] [EC:2.3.1.29]
SPO3359  tdh; L-threonine 3-dehydrogenase [KO:K00060] [EC:1.1.1.103]
SPO2596  hemA-1; 5-aminolevulinic acid synthase [KO:K00643] [EC:2.3.1.37]
SPOA0194  hemA-2; 5-aminolevulinic acid synthase [KO:K00643] [EC:2.3.1.37]
SPOA0059  gcvP; glycine dehydrogenase [KO:K00281] [EC:1.4.4.2]
SPO1562  glycine cleavage system T protein, putative [KO:K00605] [EC:2.1.2.10]
SPOA0057  gcvT; glycine cleavage system T protein [KO:K00605] [EC:2.1.2.10]
SPO1579  aminomethyl transferase family protein [KO:K00605] [EC:2.1.2.10]
SPO2222  pyruvate dehydrogenase complex, E3 component, lipoamide dehydrogenase, putative [KO:K00382] [EC:1.8.1.4]
SPO0340  lpdA; 2-oxoglutarate dehydrogenase, E3 component, dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
SPO0878  gcvH-1; glycine cleavage system H protein [KO:K02437]
SPOA0058  gcvH-2; glycine cleavage system H protein [KO:K02437]
SPO3327  creatinase [KO:K08688] [EC:3.5.3.3]
SPOA0293  pssA; CDP-diacylglycerol--serine O-phosphatidyltransferase [KO:K17103] [EC:2.7.8.8]
SPO1088  betA; choline dehydrogenase [KO:K00108] [EC:1.1.99.1]
SPO0084  betB; betaine aldehyde dehydrogenase [KO:K00130] [EC:1.2.1.8]
SPO0207  aminomethyl transferase family protein [KO:K00315] [EC:1.5.8.4]
SPO3400  aminomethyl transferase family protein [KO:K00315] [EC:1.5.8.4]
SPO0544  aminomethyl transferase family protein [KO:K00315] [EC:1.5.8.4]
SPO0564  aminomethyl transferase family protein [KO:K00315] [EC:1.5.8.4]
SPOA0063  FAD dependent oxidoreductase/aminomethyl transferase [KO:K00315] [EC:1.5.8.4]
SPO1628  aminomethyl transferase family protein [KO:K00315] [EC:1.5.8.4]
SPO1592  aminomethyl transferase family protein [KO:K00315] [EC:1.5.8.4]
SPOA0310  aminomethyl transferase family protein [KO:K00315] [EC:1.5.8.4]
SPO0635  aminomethyl transferase family protein [KO:K00315] [EC:1.5.8.4]
SPO2345  sarcosine oxidase, alpha subunit family [KO:K00302] [EC:1.5.3.24 1.5.3.1]
SPO2348  sarcosine oxidase, beta subunit family [KO:K00303] [EC:1.5.3.24 1.5.3.1]
SPO2344  sarcosine oxidase, gamma subunit family [KO:K00305] [EC:1.5.3.24 1.5.3.1]
SPO2346  sarcosine oxidase, delta subunit family [KO:K00304] [EC:1.5.3.24 1.5.3.1]
SPO3344  Cys/Met metabolism PLP-dependent enzyme family protein [KO:K01758] [EC:4.4.1.1]
SPO1323  sdaA; L-serine ammonia-lyase [KO:K01752] [EC:4.3.1.17]
SPO3341  pyridoxal-phosphate dependent enzyme family protein [KO:K01754] [EC:4.3.1.19]
SPOA0435  pyridoxal-phosphate dependent enzyme [KO:K01754] [EC:4.3.1.19]
SPO1142  threonine dehydratase, putative [KO:K01754] [EC:4.3.1.19]
SPO0020  ilvA; threonine dehydratase [KO:K01754] [EC:4.3.1.19]
SPOA0145  pyridoxal-phosphate dependent enzyme [KO:K01754] [EC:4.3.1.19]
SPO0815  trpA; tryptophan synthase, alpha subunit [KO:K01695] [EC:4.2.1.20]
SPO0808  trpB; tryptophan synthase, beta subunit [KO:K01696] [EC:4.2.1.20]
SPO1140  doeA; Ectoine hydrolase [KO:K15783] [EC:3.5.4.44]
SPO1139  doeB; N -acetyl-L-2,4-diaminobutyric acid deacetylase [KO:K15784] [EC:3.5.1.125]
SPO1136  doeD; Diaminobutyric acid transaminase [KO:K15785] [EC:2.6.1.76]
SPO1137  doeC; Aspartate-semialdehyde dehydrogenase [KO:K15786] [EC:1.2.1.-]
Compound
C00011  CO2
C00014  Ammonia
C00022  Pyruvate
C00037  Glycine
C00048  Glyoxylate
C00049  L-Aspartate
C00065  L-Serine
C00078  L-Tryptophan
C00097  L-Cysteine
C00101  Tetrahydrofolate
C00109  2-Oxobutanoate
C00114  Choline
C00143  5,10-Methylenetetrahydrofolate
C00168  Hydroxypyruvate
C00188  L-Threonine
C00197  3-Phospho-D-glycerate
C00213  Sarcosine
C00258  D-Glycerate
C00263  L-Homoserine
C00300  Creatine
C00430  5-Aminolevulinate
C00441  L-Aspartate 4-semialdehyde
C00546  Methylglyoxal
C00576  Betaine aldehyde
C00581  Guanidinoacetate
C00631  2-Phospho-D-glycerate
C00719  Betaine
C00740  D-Serine
C00986  1,3-Diaminopropane
C01005  O-Phospho-L-serine
C01026  N,N-Dimethylglycine
C01102  O-Phospho-L-homoserine
C01242  [Protein]-S8-aminomethyldihydrolipoyllysine
C01888  Aminoacetone
C02051  Lipoylprotein
C02291  L-Cystathionine
C02737  Phosphatidylserine
C02972  Dihydrolipoylprotein
C03082  4-Phospho-L-aspartate
C03194  (R)-1-Aminopropan-2-ol
C03232  3-Phosphonooxypyruvate
C03283  L-2,4-Diaminobutanoate
C03508  L-2-Amino-3-oxobutanoic acid
C05519  L-Allothreonine
C06231  Ectoine
C06442  N(gamma)-Acetyldiaminobutyrate
C16432  5-Hydroxyectoine
C19929  N(alpha)-Acetyl-L-2,4-diaminobutyrate
Reference
  Authors
Nishizuka Y, Seyama Y, Ikai A, Ishimura Y, Kawaguchi A (eds).
  Title
[Cellular Functions and Metabolic Maps] (In Japanese)
  Journal
Tokyo Kagaku Dojin (1997)
Reference
PMID:11823218
  Authors
Kuhlmann AU, Bremer E.
  Title
Osmotically regulated synthesis of the compatible solute ectoine in Bacillus pasteurii and related Bacillus spp.
  Journal
Appl Environ Microbiol 68:772-83 (2002)
DOI:10.1128/AEM.68.2.772-783.2002
Reference
PMID:10473374
  Authors
Canovas D, Borges N, Vargas C, Ventosa A, Nieto JJ, Santos H.
  Title
Role of Ngamma-acetyldiaminobutyrate as an enzyme stabilizer and an intermediate in the biosynthesis of hydroxyectoine.
  Journal
Appl Environ Microbiol 65:3774-9 (1999)
DOI:10.1128/AEM.65.9.3774-3779.1999
Reference
PMID:17636255
  Authors
Bursy J, Pierik AJ, Pica N, Bremer E.
  Title
Osmotically induced synthesis of the compatible solute hydroxyectoine is mediated by an evolutionarily conserved ectoine hydroxylase.
  Journal
J Biol Chem 282:31147-55 (2007)
DOI:10.1074/jbc.M704023200
Reference
PMID:16707670
  Authors
Garcia-Estepa R, Argandona M, Reina-Bueno M, Capote N, Iglesias-Guerra F, Nieto JJ, Vargas C.
  Title
The ectD gene, which is involved in the synthesis of the compatible solute hydroxyectoine, is essential for thermoprotection of the halophilic bacterium Chromohalobacter salexigens.
  Journal
J Bacteriol 188:3774-84 (2006)
DOI:10.1128/JB.00136-06
Reference
PMID:15470257
  Authors
Arevalo-Rodriguez M, Pan X, Boeke JD, Heitman J
  Title
FKBP12 controls aspartate pathway flux in Saccharomyces cerevisiae to prevent toxic intermediate accumulation.
  Journal
Eukaryot Cell 3:1287-96 (2004)
DOI:10.1128/EC.3.5.1287-1296.2004
Reference
PMID:7639721
  Authors
Rees WD, Hay SM
  Title
The biosynthesis of threonine by mammalian cells: expression of a complete bacterial biosynthetic pathway in an animal cell.
  Journal
Biochem J 309 ( Pt 3):999-1007 (1995)
DOI:10.1042/bj3090999
Reference
PMID:11341914
  Authors
Jacques SL, Nieman C, Bareich D, Broadhead G, Kinach R, Honek JF, Wright GD
  Title
Characterization of yeast homoserine dehydrogenase, an antifungal target: the invariant histidine 309 is important for enzyme integrity.
  Journal
Biochim Biophys Acta 1544:28-41 (2001)
DOI:10.1016/S0167-4838(00)00203-X
Reference
PMID:15520012
  Authors
Chen X, Jhee KH, Kruger WD
  Title
Production of the neuromodulator H2S by cystathionine beta-synthase via the condensation of cysteine and homocysteine.
  Journal
J Biol Chem 279:52082-6 (2004)
DOI:10.1074/jbc.C400481200
Related
pathway
sil00010  Glycolysis / Gluconeogenesis
sil00020  Citrate cycle (TCA cycle)
sil00230  Purine metabolism
sil00250  Alanine, aspartate and glutamate metabolism
sil00270  Cysteine and methionine metabolism
sil00290  Valine, leucine and isoleucine biosynthesis
sil00300  Lysine biosynthesis
sil00330  Arginine and proline metabolism
sil00460  Cyanoamino acid metabolism
sil00470  D-Amino acid metabolism
sil00564  Glycerophospholipid metabolism
sil00620  Pyruvate metabolism
sil00630  Glyoxylate and dicarboxylate metabolism
sil00640  Propanoate metabolism
sil00680  Methane metabolism
sil00860  Porphyrin metabolism
sil00920  Sulfur metabolism
KO pathway
ko00260   
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