MetaCyc Pathway: biotin biosynthesis I in Pseudomonas fluorescens FW300-N2E2

Add experiment(s):


Reactions and Genes Cobalt chloride 0.6 mM
remove
a malonyl-[acp] + S-adenosyl-L-methionine→a malonyl-[acp] methyl ester + S-adenosyl-L-homocysteine (EC 2.1.1.197)
No genes
Beta-ketoacyl-acyl-carrier-protein synthase II:
a malonyl-[acp] + a malonyl-[acp] methyl ester + H+→a 3-oxoglutaryl-[acp] methyl ester + a soluble [acyl-carrier protein] + CO2 (EC 2.3.1.179; 2.3.1.41)
Pf6N2E2_1178 +0.0
Pf6N2E2_3726 -0.1
Pf6N2E2_3729 +0.4
Pf6N2E2_5870 N.D.
Pf6N2E2_5954 N.D.
Pf6N2E2_835 -0.4
3-oxoacyl-[acyl-carrier-protein] reductase (in reverse):
a 3-oxoglutaryl-[acp] methyl ester + NADPH + H+→a (3R)-3-hydroxyglutaryl-[acp] methyl ester + NADP+ (EC 1.1.1.100)
Pf6N2E2_1004 -0.2
Pf6N2E2_1181 +0.2
Pf6N2E2_1257 +0.0
Pf6N2E2_1323 -0.0
Pf6N2E2_1747 -0.0
Pf6N2E2_1925 -0.0
Pf6N2E2_1928 +0.2
Pf6N2E2_3493 +1.5
Pf6N2E2_3704 -0.0
Pf6N2E2_3728 +0.1
Pf6N2E2_383 +0.3
Pf6N2E2_3916 -0.2
Pf6N2E2_394 +0.1
Pf6N2E2_4183 +0.1
Pf6N2E2_5206 +0.1
Pf6N2E2_5209 -0.2
Pf6N2E2_5603 +0.3
Pf6N2E2_5952 N.D.
Pf6N2E2_5967 +0.6
Pf6N2E2_6050 -0.1
Pf6N2E2_686 +0.2
Pf6N2E2_853 +0.1
Pf6N2E2_990 -0.5
Pf6N2E2_995 -0.3
3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase:
a (3R)-3-hydroxyglutaryl-[acp] methyl ester→a (2E)-enoylglutaryl-[acp] methyl ester + H2O (EC 4.2.1.59)
Pf6N2E2_3058 N.D.
Pf6N2E2_5871 N.D.
Enoyl-[acyl-carrier-protein] reductase (NADH) (in reverse):
a (2E)-enoylglutaryl-[acp] methyl ester + NADH + H+→a glutaryl-[acp] methyl ester + NAD+ (EC 1.3.1.9)
Pf6N2E2_433 +0.1
Pf6N2E2_580 N.D.
Beta-ketoacyl-acyl-carrier-protein synthase II:
a glutaryl-[acp] methyl ester + a malonyl-[acp] + H+→a 3-oxopimeloyl-[acp] methyl ester + a soluble [acyl-carrier protein] + CO2 (EC 2.3.1.179; 2.3.1.41)
Pf6N2E2_1178 +0.0
Pf6N2E2_3726 -0.1
Pf6N2E2_3729 +0.4
Pf6N2E2_5870 N.D.
Pf6N2E2_5954 N.D.
Pf6N2E2_835 -0.4
3-oxoacyl-[acyl-carrier-protein] reductase (in reverse):
a 3-oxopimeloyl-[acp] methyl ester + NADPH + H+→a (3R)-3-hydroxypimeloyl-[acp] methyl ester + NADP+ (EC 1.1.1.100)
Pf6N2E2_1004 -0.2
Pf6N2E2_1181 +0.2
Pf6N2E2_1257 +0.0
Pf6N2E2_1323 -0.0
Pf6N2E2_1747 -0.0
Pf6N2E2_1925 -0.0
Pf6N2E2_1928 +0.2
Pf6N2E2_3493 +1.5
Pf6N2E2_3704 -0.0
Pf6N2E2_3728 +0.1
Pf6N2E2_383 +0.3
Pf6N2E2_3916 -0.2
Pf6N2E2_394 +0.1
Pf6N2E2_4183 +0.1
Pf6N2E2_5206 +0.1
Pf6N2E2_5209 -0.2
Pf6N2E2_5603 +0.3
Pf6N2E2_5952 N.D.
Pf6N2E2_5967 +0.6
Pf6N2E2_6050 -0.1
Pf6N2E2_686 +0.2
Pf6N2E2_853 +0.1
Pf6N2E2_990 -0.5
Pf6N2E2_995 -0.3
3-hydroxyoctanoyl-[acyl-carrier-protein] dehydratase:
a (3R)-3-hydroxypimeloyl-[acp] methyl ester→a (2E)-enoylpimeloyl-[acp] methyl ester + H2O (EC 4.2.1.59)
Pf6N2E2_3058 N.D.
Pf6N2E2_5871 N.D.
Enoyl-[acyl-carrier-protein] reductase (NADH) (in reverse):
a (2E)-enoylpimeloyl-[acp] methyl ester + NADH + H+→a pimeloyl-[acp] methyl ester + NAD+ (EC 1.3.1.9)
Pf6N2E2_433 +0.1
Pf6N2E2_580 N.D.
a pimeloyl-[acp] methyl ester + H2O→a pimeloyl-[acp] + methanol + H+ (EC 3.1.1.85)
No genes
8-amino-7-oxononanoate synthase:
a pimeloyl-[acp] + L-alanine + H+→(8S)-8-amino-7-oxononanoate + a soluble [acyl-carrier protein] + CO2 (EC 2.3.1.47)
Pf6N2E2_4761 -0.2
Adenosylmethionine--8-amino-7-oxononanoate transaminase:
(8S)-8-amino-7-oxononanoate + S-adenosyl-L-methionine→(7R,8S)-diaminononanoate + S-adenosyl-4-methylsulfanyl-2-oxobutanoate (EC 2.6.1.62)
Pf6N2E2_1742 -0.2
Pf6N2E2_4631 +0.4
Dethiobiotin synthase:
(7R,8S)-diaminononanoate + ATP + CO2→dethiobiotin + ADP + 3 H+ + phosphate (EC 6.3.3.3)
Pf6N2E2_4764 +0.6
Biotin synthase:
dethiobiotin + H+ + 2 a reduced [2Fe-2S] ferredoxin + S-adenosyl-L-methionine + a sulfurated [sulfur carrier]→4,5-secobiotin + 5'-deoxyadenosine + L-methionine + 2 an oxidized [2Fe-2S] ferredoxin + an unsulfurated [sulfur carrier] (EC 2.8.1.6)
Pf6N2E2_4759 +0.3
Biotin synthase:
4,5-secobiotin + S-adenosyl-L-methionine→biotin + 5'-deoxyadenosine + L-methionine + H+ (EC 2.8.1.6)
Pf6N2E2_4759 +0.3

Links:

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