R20291
for which no corresponding enzyme has been identified in the genome.
The presence of those enzymes is suggested by the presence of the
pathway.
118 pathway holes (21.7%) are present in the 544 total reactions of 179 pathways
|
Reaction |
EC# |
Pathway(s) needing this reaction |
|
Coα-[α-(benzimidazolyl)]-Coβ-adenosylcobamide 5'-phosphate + H2O → Coα-[α-(benzimidazolyl)]-Coβ-adenosylcobamide + phosphate |
3.1.3.73 |
benzimidazolyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP |
|
(S)-3-hydroxyhexanoyl-CoA + NAD+ → 3-oxohexanoyl-CoA + NADH + H+ |
1.1.1.35 |
oleate beta-oxidation |
|
hexanoyl-CoA + oxidized electron-transfer flavoprotein + H+ → (2E)-hexenoyl-CoA + reduced electron-transfer flavoprotein |
1.3.8.7 |
oleate beta-oxidation |
|
(3S)-3-hydroxyoctanoyl-CoA + NAD+ → 3-oxooctanoyl-CoA + NADH + H+ |
1.1.1.35 |
oleate beta-oxidation |
|
octanoyl-CoA + oxidized electron-transfer flavoprotein + H+ → (2E)-oct-2-enoyl-CoA + reduced electron-transfer flavoprotein |
1.3.8.7 |
oleate beta-oxidation |
|
(S)-3-hydroxydecanoyl-CoA + NAD+ → 3-oxodecanoyl-CoA + NADH + H+ |
1.1.1.35 |
oleate beta-oxidation |
|
decanoyl-CoA + oxidized electron-transfer flavoprotein + H+ → (2E)-dec-2-enoyl-CoA + reduced electron-transfer flavoprotein |
1.3.8.7 |
oleate beta-oxidation |
|
(S)-3-hydroxydodecanoyl-CoA + NAD+ → 3-oxododecanoyl-CoA + NADH + H+ |
1.1.1.35/1.1.1.211 |
oleate beta-oxidation |
|
oleate + coenzyme A + ATP → oleoyl-CoA + AMP + diphosphate |
6.2.1.3 |
oleate beta-oxidation |
|
(3Z)-dodec-3-enoyl-CoA ↔ (2E)-dodec-2-enoyl-CoA |
5.3.3.8 |
oleate beta-oxidation |
|
(S)-3-hydroxy-(5Z)-tetradecenoyl-CoA + NAD+ → 3-oxo-(5Z)-tetradecenoyl-CoA + NADH + H+ |
1.1.1.35/1.1.1.211 |
oleate beta-oxidation |
|
(S)-3-hydroxy-(9Z)-octadecenoyl-CoA + NAD+ → 3-oxo-(9Z)-octadecenoyl-CoA + NADH + H+ |
1.1.1.35 |
oleate beta-oxidation |
|
(S)-3-hydroxy-(7Z)-hexadecenoyl-CoA + NAD+ → 3-oxo-(7Z)-hexadecenoyl-CoA + NADH + H+ |
1.1.1.35 |
oleate beta-oxidation |
|
(2E,5Z)-tetradecenoyl-CoA ↔ (3E,5Z)-tetradeca-3,5-dienoyl-CoA |
5.3.3.8 |
oleate beta-oxidation |
|
UDP-α-D-glucose + α-D-galactose 1-phosphate → UDP-α-D-galactose + α-D-glucopyranose 1-phosphate |
2.7.7.12 |
D-galactose degradation I (Leloir pathway) |
|
α-D-galactopyranose + ATP → α-D-galactose 1-phosphate + ADP + H+ |
2.7.1.6 |
D-galactose degradation I (Leloir pathway) |
|
L-cysteine + 2-oxoglutarate ↔ 2-oxo-3-sulfanylpropanoate + L-glutamate |
2.6.1.3 |
hydrogen sulfide biosynthesis I |
|
2-oxoglutarate + N-succinyl-L,L-2,6-diaminopimelate ↔ L-glutamate + N-succinyl-2-amino-6-ketopimelate |
2.6.1.17 |
L-lysine biosynthesis I |
|
N-succinyl-L,L-2,6-diaminopimelate + H2O → L,L-diaminopimelate + succinate |
3.5.1.18 |
L-lysine biosynthesis I |
|
thiamine phosphate + H2O → thiamine + phosphate |
3.1.3.100 |
thiamine diphosphate biosynthesis III (Staphylococcus) |
|
galactarate → 5-dehydro-4-deoxy-D-glucarate + H2O |
4.2.1.42 |
D-galactarate degradation I |
|
D-glucarate → 5-dehydro-4-deoxy-D-glucarate + H2O |
4.2.1.40 |
D-glucarate degradation I |
|
5-dehydro-4-deoxy-D-glucarate ↔ tartronate semialdehyde + pyruvate |
4.1.2.20 |
D-glucarate degradation I,
D-galactarate degradation I |
|
adenosylcobalamin 5'-phosphate + H2O → adenosylcobalamin + phosphate |
3.1.3.73 |
adenosylcobalamin biosynthesis from adenosylcobinamide-GDP I |
|
a [lipoyl-carrier protein]-N6-[(R)-lipoyl]-L-lysine + H2O → a [lipoyl-carrier protein]-L-lysine + (R)-lipoate |
3.5.1.- |
lipoate salvage II |
|
a [glycine-cleavage complex H protein] N6-[(R)-lipoyl]-L-lysine + a [lipoyl-carrier protein]-L-lysine → a [lipoyl-carrier protein]-N6-[(R)-lipoyl]-L-lysine + [glycine cleavage system lipoyl-carrier protein]-L-lysine |
2.3.1.200 |
lipoate salvage II |
|
L-arginine + H2O → urea + L-ornithine |
3.5.3.1 |
urea cycle |
|
2-chloro-5-methyl-dienelactone + H2O → 2-chloro-5-methyl-maleylacetate + H+ |
3.1.1.- |
2,4-dichlorotoluene degradation |
|
2,4-dichlorotoluene + NADH + dioxygen + H+ → (1R,2S)-4,6-dichloro-3-methylcyclohexa-3,5-diene-1,2-diol + NAD+ |
1.14.12.26 |
2,4-dichlorotoluene degradation |
|
(1R,2S)-4,6-dichloro-3-methylcyclohexa-3,5-diene-1,2-diol + NAD+ → 4,6-dichloro-3-methylcatechol + NADH + H+ |
1.3.1.119 |
2,4-dichlorotoluene degradation |
|
4,6-dichloro-3-methylcatechol + dioxygen → 3,5-dichloro-2-methyl-muconate + 2 H+ |
1.13.11.- |
2,4-dichlorotoluene degradation |
|
3-chloro-2-methyl-dienelactone + H2O → 3-chloro-2-methyl-maleylacetate + H+ |
[none] |
2,4-dichlorotoluene degradation |
|
pppGpp + H2O → ppGpp + phosphate + H+ |
3.6.1.40 |
ppGpp metabolism |
|
ethene + chloride + oxidized electron carrier + H+ ← chloroethene + reduced two electron carrier |
1.21.99.- |
tetrachloroethene degradation |
|
cis-1,2-dichloroethene + reduced two electron carrier → chloroethene + chloride + oxidized electron carrier + H+ |
1.21.99.- |
tetrachloroethene degradation |
|
prephenate + H+ → 3-phenyl-2-oxopropanoate + CO2 + H2O |
4.2.1.51 |
L-phenylalanine biosynthesis I |
|
L-homocysteine + 5-methyltetrahydropteroyl tri-L-glutamate → L-methionine + tetrahydropteroyl tri-L-glutamate |
2.1.1.14 |
S-adenosyl-L-methionine salvage I |
|
a nascent peptidoglycan with (L-alanyl-γ-D-glutamyl-meso-2,6-diaminopimeloyl-glycine) tetrapeptide → a mature peptidoglycan with (L-alanyl-γ-D-glutamyl-meso-2,6-diaminopimeloyl-glycine) tetrapeptide + di-trans,octa-cis-undecaprenyl diphosphate + H+ |
[none] |
peptidoglycan maturation (meso-diaminopimelate containing) |
|
a nascent peptidoglycan with (L-alanyl-γ-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanine) tetrapeptide → GlcNAc-1,6-anhydro-MurNAc-(L-alanyl-γ-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanine) tetrapeptide + di-trans,octa-cis-undecaprenyl diphosphate + H+ |
[none] |
peptidoglycan maturation (meso-diaminopimelate containing) |
|
a nascent peptidoglycan with L,D cross links (meso-diaminopimelate containing) → a mature peptidoglycan with L,D cross-links (meso-diaminopimelate containing) + di-trans,octa-cis-undecaprenyl diphosphate + H+ |
[none] |
peptidoglycan maturation (meso-diaminopimelate containing) |
|
a nascent peptidoglycan with D,D cross-links (meso-diaminopimelate containing) → a mature peptidoglycan with D,D cross-links (meso-diaminopimelate containing) + di-trans,octa-cis-undecaprenyl diphosphate + H+ |
[none] |
peptidoglycan maturation (meso-diaminopimelate containing) |
|
a nascent peptidoglycan with (L-alanyl-γ-D-glutamyl-meso-2,6-diaminopimelate) tripeptide → a mature peptidoglycan with (L-alanyl-γ-D-glutamyl-meso-2,6-diaminopimelate) tripeptide + di-trans,octa-cis-undecaprenyl diphosphate + H+ |
[none] |
peptidoglycan maturation (meso-diaminopimelate containing) |
|
a nascent peptidoglycan with (L-alanyl-γ-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanyl-D-alanine) pentapeptide → a mature peptidoglycan with (L-alanyl-γ-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanyl-D-alanine) pentapeptide + di-trans,octa-cis-undecaprenyl diphosphate + H+ |
[none] |
peptidoglycan maturation (meso-diaminopimelate containing) |
|
a nascent peptidoglycan with (L-alanyl-γ-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanine) tetrapeptide + glycine → a nascent peptidoglycan with (L-alanyl-γ-D-glutamyl-meso-2,6-diaminopimeloyl-glycine) tetrapeptide + D-alanine |
[none] |
peptidoglycan maturation (meso-diaminopimelate containing) |
|
Coα-[α-(adenin-9-yl)]-Coβ-adenosylcobamide 5'-phosphate + H2O → Coα-[α-(adenin-7-yl)]-Coβ-adenosylcobamide + phosphate |
3.1.3.73 |
adeninyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP |
|
L-isoleucine + 2-oxoglutarate ← L-glutamate + (3S)-3-methyl-2-oxopentanoate |
2.6.1.42 |
L-isoleucine biosynthesis I (from threonine) |
|
CDP + ATP → CTP + ADP |
2.7.4.6 |
CMP phosphorylation |
|
dADP + ATP → dATP + ADP |
2.7.4.6 |
adenosine deoxyribonucleotides de novo biosynthesis II |
|
a [lipoyl-carrier protein] N6-octanoyl-L-lysine + [Fe-S] cluster scaffold protein carrying a [4Fe-4S]+2 cluster + 2 reduced ferredoxin [iron-sulfur] cluster + 2 S-adenosyl-L-methionine + 6 H+ → a [lipoyl-carrier protein]-N6-[(R)-dihydrolipoyl]-L-lysine + 2 5'-deoxyadenosine + 2 L-methionine + [Fe-S] cluster scaffold protein not carrying a cluster + 2 S2- + 4 Fe2+ + 2 oxidized ferredoxin [iron-sulfur] cluster |
2.8.1.8 |
lipoate biosynthesis and incorporation II |
|
an α-limit dextrin → a debranched α-limit dextrin |
2.4.1.25/3.2.1.33 |
glycogen degradation II |
|
a debranched α-limit dextrin + n H2O → n D-glucopyranose |
3.2.1.3 |
glycogen degradation II |
|
cobalt-factor III + reduced two electron carrier → cobalt-precorrin-3 + oxidized electron carrier |
[none] |
cob(II)yrinate a,c-diamide biosynthesis I (early cobalt insertion) |
|
(2R,4S)-2, 4-diaminopentanoate + NAD+ + H2O → (2R)-2-amino-4-oxopentanoate + ammonia + NADH + 2 H+ |
1.4.1.26 |
L-ornithine degradation II (Stickland reaction) |
|
L-arginine + H2O → L-citrulline + ammonium |
3.5.3.6 |
L-ornithine degradation II (Stickland reaction) |
|
acetyl-CoA + D-alanine ← coenzyme A + (2R)-2-amino-4-oxopentanoate |
2.3.1.263 |
L-ornithine degradation II (Stickland reaction) |
|
propanoyl-CoA + phosphate → propanoyl phosphate + coenzyme A |
2.3.1.222 |
L-threonine degradation I |
|
2-oxobutanoate + coenzyme A → propanoyl-CoA + formate |
2.3.1.- |
L-threonine degradation I |
|
[chaperone-ADP]-[disordered-form scaffold protein] complex + ATP → [Fe-S cluster biosynthesis chaperone]-ATP + [disordered-form [Fe-S] cluster scaffold protein] + ADP |
3.6.4.- |
[2Fe-2S] iron-sulfur cluster biosynthesis |
|
[chaperone-ATP]-[co-chaperone]-[scaffold protein-(2Fe-2S)] complex + apo-iron-sulfur protein → [chaperone-ADP]-[disordered-form scaffold protein] complex + [Fe-S cluster biosynthesis co-chaperone] + holo-[2Fe-2S] cluster protein + phosphate |
[none] |
[2Fe-2S] iron-sulfur cluster biosynthesis |
|
[co-chaperone]-[scaffold protein-(2Fe-2S)] complex + [Fe-S cluster biosynthesis chaperone]-ATP → [chaperone-ATP]-[co-chaperone]-[scaffold protein-(2Fe-2S)] complex |
[none] |
[2Fe-2S] iron-sulfur cluster biosynthesis |
|
[cysteine desulfurase]-[scaffold protein-(2Fe-2S)] complex + [Fe-S cluster biosynthesis co-chaperone] → [co-chaperone]-[scaffold protein-(2Fe-2S)] complex + [L-cysteine desulfurase] |
[none] |
[2Fe-2S] iron-sulfur cluster biosynthesis |
|
[cysteine desulfurase]-(S-sulfanyl)2-[disordered-form scaffold protein] complex + 2 Fe3+ → [cysteine desulfurase]-[scaffold protein-(2Fe-2S)] complex |
[none] |
[2Fe-2S] iron-sulfur cluster biosynthesis |
|
ethanol + NAD+ ↔ acetaldehyde + NADH + H+ |
1.1.1.1 |
ethanolamine utilization |
|
acetaldehyde + coenzyme A + NAD+ → acetyl-CoA + NADH + H+ |
1.2.1.10 |
ethanolamine utilization,
2-deoxy-alpha-D-ribose 1-phosphate degradation |
|
Coα-[α-(5-methylbenzimidazolyl)]-Coβ-adenosylcobamide 5'-phosphate + H2O → Coα-[α-(5-methylbenzimidazolyl)]-Coβ-adenosylcobamide + phosphate |
3.1.3.73 |
5-methylbenzimidazolyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP |
|
pyruvate + coenzyme A + 2 oxidized ferredoxin [iron-sulfur] cluster ↔ acetyl-CoA + CO2 + 2 reduced ferredoxin [iron-sulfur] cluster + H+ |
1.2.7.1 |
pyruvate fermentation to butanoate |
|
4-methylpentanoyl-CoA + NAD+ ← 4-methylpent-2-enoyl-CoA + NADH + H+ |
1.3.1.44 |
L-leucine degradation IV (Stickland reaction) |
|
L-leucine + 2-oxoglutarate ↔ L-glutamate + 4-methyl-2-oxopentanoate |
2.6.1.6/2.6.1.42 |
L-leucine biosynthesis,
L-leucine degradation IV (Stickland reaction) |
|
aldehydo-D-galacturonate → D-tagaturonate |
5.3.1.12 |
D-galacturonate degradation I |
|
D-altronate + NAD+ ← D-tagaturonate + NADH + H+ |
1.1.1.58 |
D-galacturonate degradation I |
|
2-dehydro-3-deoxy-D-gluconate + ATP → 2-dehydro-3-deoxy-D-gluconate 6-phosphate + ADP + H+ |
2.7.1.45/2.7.1.178 |
D-galacturonate degradation I |
|
5-chloro-3-methylcatechol + dioxygen → 4-chloro-2-methyl-cis,cis-muconate + 2 H+ |
1.13.11.- |
5-chloro-3-methyl-catechol degradation |
|
demethylated methyl acceptor + S-adenosyl-L-methionine → S-adenosyl-L-homocysteine + methylated methyl acceptor + H+ |
2.1.1.- |
autoinducer AI-2 biosynthesis I |
|
dCDP + H2O → dCMP + phosphate + H+ |
3.6.1.6 |
pyrimidine deoxyribonucleotides biosynthesis from CTP |
|
CTP + H2O → CDP + phosphate + H+ |
3.6.1.15 |
pyrimidine deoxyribonucleotides de novo biosynthesis I,
pyrimidine deoxyribonucleotides de novo biosynthesis III,
pyrimidine deoxyribonucleotides biosynthesis from CTP,
UTP and CTP dephosphorylation I |
|
an (S-diacyl-sn-glyceryl)-L-cysteinyl-[apolipoprotein] + a phosphoglyceride → an N-acyl-(S-diacyl-sn-glyceryl)-L-cysteinyl-[lipoprotein] + a 1-lysophospholipid + H+ |
2.3.1.269 |
lipoprotein posttranslational modification |
|
2-phospho-D-glycerate ↔ 3-phospho-D-glycerate |
5.4.2.11 |
glycolysis III (from glucose) |
|
uridine + H2O → D-ribofuranose + uracil |
3.2.2.3 |
pyrimidine ribonucleosides salvage II |
|
3-methylbut-3-en-1-yl diphosphate ↔ prenyl diphosphate |
5.3.3.2 |
trans, trans-farnesyl diphosphate biosynthesis |
|
polycistronic tRNA precursor + H2O → tRNA precursor with a 5' extension and a short 3' extension + a partially processed polycistronic tRNA precursor |
3.1.26.12 |
tRNA processing |
|
tRNA precursor with a 5' extension and a short 3' extension → tRNA precursor with a 5' extension + a ribonucleoside 5'-monophosphate |
3.1.13.5 |
tRNA processing |
|
tRNA precursor with a short 3' extension → uncharged tRNA + n a nucleoside 5'-monophosphate |
3.1.13.5 |
tRNA processing |
|
polycistronic tRNA precursor + H2O → tRNA precursor with a 5' extension and a long 3' trailer + a partially processed polycistronic tRNA precursor |
3.1.26.12 |
tRNA processing |
|
GDP + ATP → GTP + ADP |
2.7.4.6 |
guanosine ribonucleotides de novo biosynthesis,
ppGpp metabolism |
|
dGDP + ATP → dGTP + ADP |
2.7.4.6 |
guanosine deoxyribonucleotides de novo biosynthesis II |
|
Coα-[α-(2-methyladenin-9-yl)]-Coβ-adenosylcobamide 5'-phosphate + H2O → Coα-[α-(2-methyladenin-7-yl)]-Coβ-adenosylcobamide + phosphate |
3.1.3.73 |
2-methyladeninyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP |
|
a (1→4)-β-D-xylan + n H2O → n a (1->4)-β-D-xylan oligosaccharide |
3.2.1.8/3.2.1.-/3.2.1.-/3.2.1.- |
(1,4)-beta-D-xylan degradation |
|
2,3,4-saturated fatty acyl-[acp] + NADP+ ← trans-2-enoyl-[acyl-carrier protein] + NADPH + H+ |
1.3.1.10/1.3.1.39/1.3.1.104 |
fatty acid elongation -- saturated |
|
L-valine + 2-oxoglutarate ↔ L-glutamate + 3-methyl-2-oxobutanoate |
2.6.1.42 |
L-valine biosynthesis |
|
N,N',N''-triacetylchitotriose + H2O → N,N'-diacetylchitobiose + N-acetyl-D-glucosamine |
3.2.1.52 |
chitin degradation II (Vibrio) |
|
N,N'-diacetylchitobiose + H2O → 2 N-acetyl-D-glucosamine |
3.2.1.52 |
chitin degradation II (Vibrio) |
|
aceneuramate ↔ N-acetyl-β-neuraminate |
[none] |
N-acetylneuraminate and N-acetylmannosamine degradation I |
|
N-acetyl-D-mannosamine + ATP → N-acetyl-D-mannosamine 6-phosphate + ADP + H+ |
2.7.1.60 |
N-acetylneuraminate and N-acetylmannosamine degradation I |
|
(S)-3-aminobutanoyl-CoA → ammonium + crotonyl-CoA |
4.3.1.14 |
L-lysine fermentation to acetate and butanoate |
|
(S)-5-amino-3-oxohexanoate + acetyl-CoA ↔ (S)-3-aminobutanoyl-CoA + acetoacetate |
2.3.1.247 |
L-lysine fermentation to acetate and butanoate |
|
(3S,5S)-3,5-diaminohexanoate + NAD+ + H2O → (S)-5-amino-3-oxohexanoate + ammonium + NADH + H+ |
1.4.1.11 |
L-lysine fermentation to acetate and butanoate |
|
L-β-lysine ↔ (3S,5S)-3,5-diaminohexanoate |
5.4.3.3 |
L-lysine fermentation to acetate and butanoate |
|
L-lysine → L-β-lysine |
5.4.3.2 |
L-lysine fermentation to acetate and butanoate |
|
chorismate → prephenate |
5.4.99.5 |
L-tyrosine biosynthesis I,
L-phenylalanine biosynthesis I |
|
thiamine phosphate + ATP → ADP + thiamine diphosphate |
2.7.4.16 |
thiamine diphosphate biosynthesis I (E. coli),
thiamine diphosphate biosynthesis II (Bacillus) |
|
guanosine + H2O → D-ribofuranose + guanine |
3.2.2.1 |
guanine and guanosine salvage II |
|
ATP + UTP + L-glutamine + H2O → ADP + CTP + L-glutamate + phosphate + 2 H+ |
6.3.4.2 |
UTP and CTP de novo biosynthesis,
UTP and CTP dephosphorylation I |
|
UDP + ATP → UTP + ADP |
2.7.4.6 |
UTP and CTP de novo biosynthesis |
|
(2S,3S)-2,3-dihydroxy-2,3-dihydrobenzoate + NAD+ → 2,3-dihydroxybenzoate + NADH + H+ |
1.3.1.28 |
2,3-dihydroxybenzoate biosynthesis |
|
chorismate → isochorismate |
5.4.4.2 |
2,3-dihydroxybenzoate biosynthesis |
|
2 3-(4-hydroxyphenyl)pyruvate + dioxygen → 2 (4-hydroxyphenyl)acetate + 2 CO2 |
1.2.3.13 |
L-tyrosine degradation IV (to 4-methylphenol) |
|
butanoyl-CoA + 2 reduced ferredoxin [iron-sulfur] cluster + 2 NAD+ ← crotonyl-CoA + 2 oxidized ferredoxin [iron-sulfur] cluster + 2 NADH |
1.3.1.109 |
pyruvate fermentation to butanoate,
succinate fermentation to butanoate,
4-aminobutanoate degradation V |
|
4-aminobutanoate + 2-oxoglutarate → succinate semialdehyde + L-glutamate |
2.6.1.19 |
4-aminobutanoate degradation V |
|
glutathione → L-cysteinylglycine + 5-oxo-L-proline |
4.3.2.7 |
5-oxo-L-proline metabolism |
|
uroporphyrinogen-III + 4 H+ → coproporphyrinogen III + 4 CO2 |
4.1.1.37 |
heme b biosynthesis II (oxygen-independent) |
|
protoheme + 2 H+ ← protoporphyrin IX + Fe2+ |
4.98.1.1 |
heme b biosynthesis II (oxygen-independent) |
|
queuine + a guanine34 in tRNA → a queuosine in tRNA + guanine |
2.4.2.64 |
|
|
D-glucosamine 1-phosphate + acetyl-CoA → N-acetyl-α-D-glucosamine 1-phosphate + coenzyme A + H+ |
2.3.1.157 |
UDP-N-acetyl-D-glucosamine biosynthesis I |
|
N-acetyl-α-D-glucosamine 1-phosphate + UTP + H+ → UDP-N-acetyl-α-D-glucosamine + diphosphate |
2.7.7.23 |
UDP-N-acetyl-D-glucosamine biosynthesis I |
|
oxidized thioredoxin + reduced two electron carrier ← reduced thioredoxin + oxidized electron carrier |
[none] |
thioredoxin pathway |
|
L-homocysteine + a 5-methyltetrahydrofolate → L-methionine + a tetrahydrofolate |
2.1.1.13 |
folate transformations III (E. coli) |
|
a 5-methyltetrahydrofolate + NAD(P)+ ↔ a 5,10-methylenetetrahydrofolate + NAD(P)H + H+ |
1.5.1.20 |
folate transformations III (E. coli) |
|
3-(carbamoylamino)-2-methylpropanoate + H2O + 2 H+ → (R)-3-amino-2-methylpropanoate + ammonium + CO2 |
3.5.1.6 |
thymine degradation |
51 pathway holes have been filled by the pathway hole filler, in 179 pathways.
|
Hole-filler |
Hole EC# |
P(has-function) |
All functions of hole-filler |
Pathway(s) requiring this reaction |
|
adk |
2.7.4.6 |
0.921 |
adenylate kinase |
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli),
pyrimidine deoxyribonucleotides biosynthesis from CTP,
pyrimidine deoxyribonucleotides de novo biosynthesis III,
pyrimidine deoxyribonucleotides de novo biosynthesis I |
|
adk |
2.7.4.6 |
0.921 |
adenylate kinase |
superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli),
pyrimidine deoxyribonucleotides biosynthesis from CTP,
pyrimidine deoxyribonucleotides de novo biosynthesis II,
pyrimidine deoxyribonucleotides de novo biosynthesis III,
pyrimidine deoxyribonucleotides de novo biosynthesis I |
|
hadA |
2.8.3.24 |
0.983 |
isocaprenoyl-CoA:2-hydroxyisocaproate CoA-transferase |
L-leucine degradation IV (Stickland reaction) |
|
CDR20291_0488 |
1.17.99.6 |
0.962 |
putative iron-sulfur cluster protein |
queuosine biosynthesis III (queuosine salvage) |
|
folD |
1.5.1.5 |
0.995 |
putative FolD bifunctional protein |
formate assimilation into 5,10-methylenetetrahydrofolate,
folate transformations III (E. coli) |
|
crt1 |
4.2.1.17 |
0.987 |
3-hydroxybutyryl-CoA dehydratase (crotonase) |
oleate beta-oxidation |
|
crt1 |
4.2.1.74 |
0.987 |
3-hydroxybutyryl-CoA dehydratase (crotonase) |
oleate beta-oxidation |
|
crt1 |
4.2.1.74 |
0.987 |
3-hydroxybutyryl-CoA dehydratase (crotonase) |
oleate beta-oxidation |
|
crt1 |
4.2.1.17 |
0.987 |
3-hydroxybutyryl-CoA dehydratase (crotonase) |
oleate beta-oxidation |
|
crt1 |
4.2.1.74 |
0.987 |
3-hydroxybutyryl-CoA dehydratase (crotonase) |
oleate beta-oxidation |
|
crt1 |
4.2.1.74 |
0.994 |
3-hydroxybutyryl-CoA dehydratase (crotonase) |
oleate beta-oxidation |
|
crt1 |
4.2.1.17 |
0.987 |
3-hydroxybutyryl-CoA dehydratase (crotonase) |
oleate beta-oxidation |
|
serC |
2.6.1.52 |
0.959 |
putative aminotransferase |
L-serine biosynthesis |
|
hbd |
1.1.1.35 |
0.995 |
3-hydroxybutyryl-CoA dehydrogenase |
pyruvate fermentation to butanoate,
oleate beta-oxidation |
|
fabK |
1.3.1.9 |
0.903 |
trans-2-enoyl-ACP reductase |
fatty acid elongation -- saturated |
|
fabG |
1.1.1.100 |
0.997 |
3-oxoacyl-[acyl-carrier protein] reductase |
fatty acid elongation -- saturated |
|
ispA |
2.5.1.1 |
1.000 |
geranyltranstransferase |
trans, trans-farnesyl diphosphate biosynthesis |
|
iscS2 |
2.8.1.- |
1.000 |
cysteine desulfurase |
[2Fe-2S] iron-sulfur cluster biosynthesis |
|
iscS2 |
2.8.1.- |
1.000 |
cysteine desulfurase |
[2Fe-2S] iron-sulfur cluster biosynthesis |
|
CDR20291_1120 |
none |
0.974 |
NifU-like protein |
[2Fe-2S] iron-sulfur cluster biosynthesis |
|
CDR20291_1230 |
3.5.2.9 |
0.971 |
conserved hypothetical protein |
5-oxo-L-proline metabolism |
|
hisI |
3.5.4.19 |
0.998 |
histidine biosynthesis bifunctional protein |
L-histidine biosynthesis |
|
hisI |
3.6.1.31 |
0.926 |
histidine biosynthesis bifunctional protein |
L-histidine biosynthesis |
|
queL |
4.3.99.- |
0.900 |
radical SAM superfamily protein |
queuosine biosynthesis III (queuosine salvage) |
|
metA |
2.3.1.31 |
0.998 |
homoserine O-succinyltransferase |
L-homocysteine biosynthesis |
|
CDR20291_1727 |
2.5.1.54 |
0.961 |
putative chorismate biosynthesis-related protein |
3-dehydroquinate biosynthesis I |
|
aroE |
1.1.1.25 |
0.999 |
shikimate dehydrogenase |
chorismate biosynthesis from 3-dehydroquinate |
|
argF |
2.1.3.3 |
0.989 |
ornithine carbamoyltransferase |
L-ornithine degradation II (Stickland reaction),
L-arginine biosynthesis I (via L-ornithine),
urea cycle,
L-arginine biosynthesis II (acetyl cycle) |
|
argM |
2.6.1.11 |
0.926 |
succinylornithine transaminase |
L-ornithine biosynthesis I,
L-arginine biosynthesis II (acetyl cycle) |
|
abfT |
2.8.3.1/2.8.3.8 |
0.996 |
4-hydroxybutyrate CoA transferase |
4-aminobutanoate degradation V,
succinate fermentation to butanoate |
|
sucD |
1.2.1.76 |
0.999 |
succinate-semialdehyde dehydrogenase [NAD(P)+] |
succinate fermentation to butanoate |
|
thlA2 |
2.3.1.16 |
0.998 |
putative acetyl-CoA acetyltransferase |
oleate beta-oxidation |
|
thlA2 |
2.3.1.16 |
0.998 |
putative acetyl-CoA acetyltransferase |
oleate beta-oxidation |
|
thlA2 |
2.3.1.16 |
0.998 |
putative acetyl-CoA acetyltransferase |
oleate beta-oxidation |
|
thlA2 |
2.3.1.16 |
0.998 |
putative acetyl-CoA acetyltransferase |
oleate beta-oxidation |
|
thlA2 |
2.3.1.16 |
0.998 |
putative acetyl-CoA acetyltransferase |
oleate beta-oxidation |
|
thlA2 |
2.3.1.16 |
0.998 |
putative acetyl-CoA acetyltransferase |
oleate beta-oxidation |
|
CDR20291_2631 |
3.1.2.6 |
0.926 |
putative hydrolase |
methylglyoxal degradation I |
|
relA |
3.1.7.2 |
1.000 |
putative GTP pyrophosphokinase |
ppGpp metabolism |
|
relA |
3.1.7.2 |
1.000 |
putative GTP pyrophosphokinase |
ppGpp metabolism |
|
CDR20291_2777 |
3.5.1.105 |
0.974 |
conserved hypothetical protein |
chitobiose degradation |
|
gapB |
1.2.1.12 |
0.996 |
glyceraldehyde-3-phosphate dehydrogenase 2 |
glycolysis III (from glucose) |
|
CDR20291_3035 |
1.3.1.2 |
0.974 |
putative dihydroorotate dehydrogenase, catalytic subunit |
thymine degradation |
|
CDR20291_3035 |
1.3.1.2 |
0.974 |
putative dihydroorotate dehydrogenase, catalytic subunit |
uracil degradation I (reductive) |
|
fdhF |
1.18.99.- |
1.000 |
formate dehydrogenase h |
hydrogen production V |
|
hemD |
none |
0.984 |
porphyrin biosynthesis protein includes: uroporphyrinogen-III methyltransferase and uroporphyrinogen-III synthase] |
cob(II)yrinate a,c-diamide biosynthesis I (early cobalt insertion),
siroheme biosynthesis |
|
cbiK |
2.1.1.151 |
0.998 |
sirohydrochlorin cobaltochelatase |
cob(II)yrinate a,c-diamide biosynthesis I (early cobalt insertion) |
|
cbiG |
3.7.1.12 |
0.925 |
putative cobalamin biosynthesis protein |
cob(II)yrinate a,c-diamide biosynthesis I (early cobalt insertion) |
|
cbiF |
2.1.1.271 |
0.990 |
precorrin-4 C(11)-methyltransferase |
cob(II)yrinate a,c-diamide biosynthesis I (early cobalt insertion) |
|
CDR20291_3392 |
2.7.1.33 |
0.919 |
conserved hypothetical protein |
phosphopantothenate biosynthesis I |
|
rnpA |
3.1.26.5 |
0.995 |
ribonuclease P protein component |
tRNA processing |
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