MetaCyc Pathway: superpathway of pyrimidine deoxyribonucleotides <i>de novo</i> biosynthesis in Burkholderia phytofirmans PsJN

MetaCyc Pathway: superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis in Burkholderia phytofirmans PsJN

Carbamoyl-phosphate synthase (glutamine-hydrolyzing):
L-glutamine + hydrogen carbonate + 2 ATP + H₂O→carbamoyl phosphate + 2 ADP + L-glutamate + 2 H⁺ + phosphate (EC 6.3.5.5)

Aspartate carbamoyltransferase:
carbamoyl phosphate + L-aspartate→N-carbamoyl-L-aspartate + H⁺ + phosphate (EC 2.1.3.2)

Dihydroorotase (in reverse):
N-carbamoyl-L-aspartate + H⁺→(S)-dihydroorotate + H₂O (EC 3.5.2.3)

Dihydroorotate dehydrogenase:
(S)-dihydroorotate_[in] + an electron-transfer quinone→orotate_[in] + an electron-transfer quinol (EC 1.3.5.2)

Orotate phosphoribosyltransferase (in reverse):
orotate + 5-phospho-α-D-ribose 1-diphosphate→orotidine 5'-phosphate + diphosphate (EC 2.4.2.10)

Orotidine-5'-phosphate decarboxylase:
orotidine 5'-phosphate + H⁺→UMP + CO₂ (EC 4.1.1.23)

Cytidylate kinase:
UMP + ATP→UDP + ADP (EC 2.7.4.14; 2.7.4.22)

Nucleoside-diphosphate kinase:
UDP + ATP→UTP + ADP (EC 2.7.4.6)

Ribonucleoside-diphosphate reductase (in reverse):
UDP + a reduced thioredoxin→dUDP + an oxidized thioredoxin + H₂O (EC 1.17.4.1)

CTP synthase:
UTP + L-glutamine + ATP + H₂O→CTP + ADP + L-glutamate + 2 H⁺ + phosphate (EC 6.3.4.2)

Nucleoside-diphosphate kinase:
dUDP + ATP→dUTP + ADP (EC 2.7.4.6)

dUTP diphosphatase:
dUTP + H₂O→dUMP + diphosphate + H⁺ (EC 3.6.1.23; 3.6.1.9)

Nucleoside-triphosphatase:
CTP + H₂O→CDP + H⁺ + phosphate (EC 3.6.1.15; 3.6.1.5)

Ribonucleoside-diphosphate reductase (in reverse):
CDP + a reduced thioredoxin→dCDP + an oxidized thioredoxin + H₂O (EC 1.17.4.1)

Thymidylate synthase:
dUMP + a 5,10-methylenetetrahydrofolate→dTMP + a 7,8-dihydrofolate (EC 2.1.1.45)

Nucleoside-diphosphate kinase:
dCDP + ATP→dCTP + ADP (EC 2.7.4.6)

T(2)-induced deoxynucleotide kinase:
dTMP + ATP→dTDP + ADP (EC 2.7.4.12; 2.7.4.13; 2.7.4.9)

Nucleoside-diphosphate kinase:
dTDP + ATP→dTTP + ADP (EC 2.7.4.6)

Links:

Pathway details at MetaCyc
Fitness data for 22 genes
Select organism:
All MetaCyc pathways for Burkholderia phytofirmans PsJN

Candidate genes for each reaction are identified from best hits to MetaCyc; by matching EC numbers (which are assigned by TIGRFam, SEED, or best hits to KEGG); or by matching SEED roles to KEGG reactions to MetaCyc reactions. See the "Protein" tab of each gene for more information