MetaCyc Pathway: superpathway of pyrimidine deoxyribonucleotides <i>de novo</i> biosynthesis (<i>E. coli</i>) in Dickeya dianthicola ME23

MetaCyc Pathway: superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli) in Dickeya dianthicola ME23

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

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

CTP + formate + H⁺→dCTP + CO₂ + H₂O (EC 1.1.98.6)

formate + UTP + H⁺→dUTP + CO₂ + H₂O (EC 1.1.98.6)

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

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

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

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

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

dCTP deaminase:
dCTP + H⁺ + H₂O→dUTP + ammonium (EC 3.5.4.13)

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

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

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 13 genes
Select organism:
All MetaCyc pathways for Dickeya dianthicola ME23

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