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 |
|
4-aminobutanoate + 2-oxoglutarate → succinate semialdehyde + L-glutamate |
2.6.1.19 |
4-aminobutanoate degradation V |
|
adenosylcobalamin 5'-phosphate + H2O → adenosylcobalamin + phosphate |
3.1.3.73 |
adenosylcobalamin biosynthesis from adenosylcobinamide-GDP I |
|
pppGpp + H2O → ppGpp + phosphate + H+ |
3.6.1.40 |
ppGpp metabolism |
|
queuine + a guanine34 in tRNA → a queuosine in tRNA + guanine |
2.4.2.64 |
|
|
3-(carbamoylamino)-2-methylpropanoate + H2O + 2 H+ → (R)-3-amino-2-methylpropanoate + ammonium + CO2 |
3.5.1.6 |
thymine degradation |
|
D-glucarate → 5-dehydro-4-deoxy-D-glucarate + H2O |
4.2.1.40 |
D-glucarate degradation 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 |
|
oxidized thioredoxin + reduced two electron carrier ← reduced thioredoxin + oxidized electron carrier |
[none] |
thioredoxin pathway |
|
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 |
|
(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 |
|
guanosine + H2O → D-ribofuranose + guanine |
3.2.2.1 |
guanine and guanosine salvage II |
|
demethylated methyl acceptor + S-adenosyl-L-methionine → S-adenosyl-L-homocysteine + methylated methyl acceptor + H+ |
2.1.1.- |
autoinducer AI-2 biosynthesis I |
|
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 |
|
dGDP + ATP → dGTP + ADP |
2.7.4.6 |
guanosine deoxyribonucleotides de novo biosynthesis II |
|
glutathione → L-cysteinylglycine + 5-oxo-L-proline |
4.3.2.7 |
5-oxo-L-proline metabolism |
|
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) |
|
4-methylpentanoyl-CoA + NAD+ ← 4-methylpent-2-enoyl-CoA + NADH + H+ |
1.3.1.44 |
L-leucine degradation IV (Stickland reaction) |
|
L-valine + 2-oxoglutarate ↔ L-glutamate + 3-methyl-2-oxobutanoate |
2.6.1.42 |
L-valine biosynthesis |
|
Coα-[α-(benzimidazolyl)]-Coβ-adenosylcobamide 5'-phosphate + H2O → Coα-[α-(benzimidazolyl)]-Coβ-adenosylcobamide + phosphate |
3.1.3.73 |
benzimidazolyl adenosylcobamide biosynthesis from adenosylcobinamide-GDP |
|
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) |
|
L-isoleucine + 2-oxoglutarate ← L-glutamate + (3S)-3-methyl-2-oxopentanoate |
2.6.1.42 |
L-isoleucine biosynthesis I (from threonine) |
|
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) |
|
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 |
|
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 |
|
CDP + ATP → CTP + ADP |
2.7.4.6 |
CMP phosphorylation |
|
galactarate → 5-dehydro-4-deoxy-D-glucarate + H2O |
4.2.1.42 |
D-galactarate degradation I |
|
5-dehydro-4-deoxy-D-glucarate ↔ tartronate semialdehyde + pyruvate |
4.1.2.20 |
D-glucarate degradation I,
D-galactarate degradation I |
|
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 |
|
(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) |
|
[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 |
|
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 |
|
chorismate → prephenate |
5.4.99.5 |
L-tyrosine biosynthesis I,
L-phenylalanine biosynthesis I |
|
prephenate + H+ → 3-phenyl-2-oxopropanoate + CO2 + H2O |
4.2.1.51 |
L-phenylalanine 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 |
|
L-homocysteine + 5-methyltetrahydropteroyl tri-L-glutamate → L-methionine + tetrahydropteroyl tri-L-glutamate |
2.1.1.14 |
S-adenosyl-L-methionine salvage I |
|
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) |
|
L-arginine + H2O → urea + L-ornithine |
3.5.3.1 |
urea cycle |
|
thiamine phosphate + H2O → thiamine + phosphate |
3.1.3.100 |
thiamine diphosphate biosynthesis III (Staphylococcus) |
|
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) |
|
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 |
|
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 |
|
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 |
|
5-chloro-3-methylcatechol + dioxygen → 4-chloro-2-methyl-cis,cis-muconate + 2 H+ |
1.13.11.- |
5-chloro-3-methyl-catechol degradation |
|
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 |
|
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 |
|
(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 |
|
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 |
|
dADP + ATP → dATP + ADP |
2.7.4.6 |
adenosine deoxyribonucleotides de novo biosynthesis II |
|
(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 |
|
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) |
|
2 3-(4-hydroxyphenyl)pyruvate + dioxygen → 2 (4-hydroxyphenyl)acetate + 2 CO2 |
1.2.3.13 |
L-tyrosine degradation IV (to 4-methylphenol) |
|
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 |
|
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 |
|
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 |
|
2-phospho-D-glycerate ↔ 3-phospho-D-glycerate |
5.4.2.11 |
glycolysis III (from glucose) |
|
3-methylbut-3-en-1-yl diphosphate ↔ prenyl diphosphate |
5.3.3.2 |
trans, trans-farnesyl diphosphate biosynthesis |
|
uridine + H2O → D-ribofuranose + uracil |
3.2.2.3 |
pyrimidine ribonucleosides salvage II |
|
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 |
|
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 |
|
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 |
|
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 |
|
L-cysteine + 2-oxoglutarate ↔ 2-oxo-3-sulfanylpropanoate + L-glutamate |
2.6.1.3 |
hydrogen sulfide biosynthesis I |
|
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) |
|
thiamine phosphate + ATP → ADP + thiamine diphosphate |
2.7.4.16 |
thiamine diphosphate biosynthesis I (E. coli),
thiamine diphosphate biosynthesis II (Bacillus) |
|
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 |
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 |
0.994 |
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 |
0.987 |
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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