78 pathway holes were filled.
|
Reaction
|
EC#
|
Hole-filler
|
P(has-function)
|
Pathway(s) needing this reaction
|
|
Ribose 5-phosphate epimerase
|
5.3.1.6
|
RV2465C
|
0.788
|
non-oxidative branch of the pentose phosphate pathway ,
superpathway for gluconate utilization ,
ribose degradation
|
|
ACONITATEHYDR-RXN
|
[none]
|
RV1475C
|
0.998
|
TCA cycle, variation 8 ,
anaerobic respiration ,
serine-isocitrate lyase pathway
|
|
lactate oxidation
|
[none]
|
RV1872C
|
0.882
|
anaerobic respiration -- electron donors reaction list
|
|
6-phosphogluconolactonase
|
3.1.1.31
|
RV1445C
|
0.998
|
oxidative branch of the pentose phosphate pathway
|
|
Phosphate acetyltransferase
|
2.3.1.8
|
RV0408
|
1.000
|
fermentation ,
lactate oxidation ,
carbon monoxide dehydrogenase pathway ,
acetate fermentation ,
heterofermentative lactate fermentation ,
acetate degradation ,
central fermentation pathway
|
|
Carbon-monoxide dehydrogenase
|
1.2.99.2
|
RV0375C
|
0.912
|
carbon monoxide dehydrogenase pathway ,
acetate fermentation
|
|
Pyruvate synthase
|
1.2.7.1
|
RV2455C
|
0.899
|
acetate fermentation
|
|
D-lactate dehydrogenase
|
1.1.1.28
|
RV2996C
|
0.869
|
fermentation ,
heterofermentative lactate fermentation
|
|
Butyrate kinase
|
2.7.2.7
|
RV0409
|
0.983
|
central fermentation pathway
|
|
Phosphate butyryltransferase
|
2.3.1.19
|
RV0408
|
0.993
|
central fermentation pathway
|
|
Butyryl-CoA dehydrogenase
|
1.3.99.2
|
RV3562
|
1.000
|
central fermentation pathway
|
|
Butyryl-CoA dehydrogenase
|
1.3.99.2
|
RV1346
|
1.000
|
central fermentation pathway
|
|
3-hydroxybutyryl-CoA dehydratase
|
4.2.1.55
|
RV0456C
|
1.000
|
central fermentation pathway
|
|
3-hydroxybutyryl-CoA dehydratase
|
4.2.1.55
|
RV0632C
|
1.000
|
central fermentation pathway
|
|
Maltose phosphorylase
|
2.4.1.8
|
RV3401
|
0.999
|
maltose degradation
|
|
Alpha-amylase
|
3.2.1.1
|
RV0126
|
0.992
|
glycogen degradation
|
|
Isoamylase
|
3.2.1.68
|
RV1564C
|
0.827
|
glycogen degradation
|
|
4-alpha-glucanotransferase
|
2.4.1.25
|
RV1781C
|
0.972
|
glycogen degradation
|
|
Aldehyde dehydrogenase (NAD+)
|
1.2.1.3
|
RV0458
|
0.968
|
octane oxidation
|
|
Alkane-1 monooxygenase
|
1.14.15.3
|
RV1394C
|
0.939
|
octane oxidation
|
|
Glycerate kinase
|
2.7.1.31
|
RV2205C
|
0.984
|
serine-isocitrate lyase pathway
|
|
Glycerate kinase
|
2.7.1.31
|
RV2340C
|
0.966
|
serine-isocitrate lyase pathway
|
|
Muconolactone delta-isomerase
|
5.3.3.4
|
RV0316
|
0.974
|
catechol degradation, ortho-cleavage
|
|
L-threonine 3-dehydrogenase
|
1.1.1.103
|
RV2259
|
0.974
|
threonine degradation I
|
|
Cystathionine gamma-lyase
|
4.4.1.1
|
RV1079
|
0.982
|
threonine degradation I ,
homocysteine degradation I
|
|
4-hydroxy-2-oxoglutarate aldolase
|
4.1.3.16
|
RV1223
|
0.882
|
4-hydroxyproline degradation
|
|
Branched-chain amino acid aminotransferase
|
2.6.1.42
|
RV2210C
|
0.953
|
isoleucine biosynthesis I ,
isoleucine degradation I ,
isoleucine degradation III
|
|
Glycerol-3-phosphate dehydrogenase (NAD(P)+)
|
1.1.1.94
|
RV2982C
|
0.884
|
phospholipid biosynthesis ,
glycerol metabolism ,
aerobic glycerol degradation I
|
|
Glycerol-3-phosphate dehydrogenase (NAD(P)+)
|
1.1.1.94
|
RV0564C
|
0.884
|
phospholipid biosynthesis ,
glycerol metabolism ,
aerobic glycerol degradation I
|
|
2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase
|
1.3.1.28
|
RV3502C
|
1.000
|
enterobactin biosynthesis
|
|
Spermine synthase
|
2.5.1.22
|
RV2601
|
0.351
|
ornithine spermine biosynthesis
|
|
ADDALT-RXN
|
[none]
|
RV3313C
|
0.964
|
salvage pathways of adenine, hypoxanthine, and their nucleosides
|
|
CDPREDUCT-RXN
|
[none]
|
RV3051C
|
0.973
|
de novo biosynthesis of pyrimidine deoxyribonucleotides
|
|
CDPREDUCT-RXN
|
[none]
|
RV3048C
|
0.960
|
de novo biosynthesis of pyrimidine deoxyribonucleotides
|
|
UDPREDUCT-RXN
|
[none]
|
RV3051C
|
0.973
|
de novo biosynthesis of pyrimidine deoxyribonucleotides
|
|
UDPREDUCT-RXN
|
[none]
|
RV3048C
|
0.960
|
de novo biosynthesis of pyrimidine deoxyribonucleotides
|
|
DTDPKIN-RXN
|
[none]
|
RV2445C
|
1.000
|
de novo biosynthesis of pyrimidine deoxyribonucleotides
|
|
Thymidylate kinase
|
2.7.4.9
|
RV2553C
|
0.882
|
de novo biosynthesis of pyrimidine deoxyribonucleotides
|
|
DUDPKIN-RXN
|
[none]
|
RV2445C
|
1.000
|
de novo biosynthesis of pyrimidine deoxyribonucleotides
|
|
DCDPKIN-RXN
|
2.7.4.6
|
RV2445C
|
1.000
|
de novo biosynthesis of pyrimidine deoxyribonucleotides
|
|
CDPKIN-RXN
|
[none]
|
RV2445C
|
1.000
|
salvage pathways of pyrimidine ribonucleotides ,
de novo biosynthesis of pyrimidine ribonucleotides
|
|
UDPKIN-RXN
|
[none]
|
RV2445C
|
1.000
|
de novo biosynthesis of pyrimidine ribonucleotides
|
|
DADPKIN-RXN
|
2.7.4.6
|
RV2445C
|
1.000
|
de novo biosynthesis of purine nucleotides
|
|
DGDPKIN-RXN
|
2.7.4.6
|
RV2445C
|
1.000
|
de novo biosynthesis of purine nucleotides
|
|
ADPREDUCT-RXN
|
[none]
|
RV3051C
|
0.973
|
de novo biosynthesis of purine nucleotides
|
|
ADPREDUCT-RXN
|
[none]
|
RV3048C
|
0.960
|
de novo biosynthesis of purine nucleotides
|
|
Adenylosuccinate lyase
|
4.3.2.2
|
RV0777
|
0.998
|
de novo biosynthesis of purine nucleotides
|
|
IMP cyclohydrolase
|
3.5.4.10
|
RV0957
|
1.000
|
de novo biosynthesis of purine nucleotides
|
|
GDPPYPHOSKIN-RXN
|
[none]
|
RV2583C
|
0.964
|
ppGpp metabolism
|
|
1-acylglycerol-3-phosphate O-acyltransferase
|
2.3.1.51
|
RV2483C
|
0.989
|
phospholipid biosynthesis ,
triglyceride biosynthesis
|
|
Thiamine-phosphate pyrophosphorylase
|
2.5.1.3
|
RV0414C
|
0.802
|
thiamine biosynthesis
|
|
RIBOFLAVINSYNDEAM-RXN
|
[none]
|
RV1409
|
0.777
|
riboflavin and FMN and FAD biosynthesis
|
|
RIBOFLAVINSYNREDUC-RXN
|
[none]
|
RV1409
|
0.777
|
riboflavin and FMN and FAD biosynthesis
|
|
FMN adenylyltransferase
|
2.7.7.2
|
RV2786C
|
1.000
|
riboflavin and FMN and FAD biosynthesis
|
|
Dihydroneopterin aldolase
|
4.1.2.25
|
RV3607C
|
0.995
|
folic acid biosynthesis
|
|
Dihydrofolate synthase
|
6.3.2.12
|
RV2447C
|
0.996
|
folic acid biosynthesis ,
formylTHF biosynthesis
|
|
2-oxoglutarate decarboxylase
|
4.1.1.71
|
RV0555
|
1.000
|
menaquinone biosynthesis
|
|
Purine nucleosidase
|
3.2.2.1
|
RV3393
|
0.882
|
nicotinamide cycling
|
|
L-ASPARTATE-OXID-RXN
|
1.4.3.-
|
RV1595
|
0.967
|
pyridine nucleotide biosynthesis
|
|
QUINOLINATE-SYNTHA-RXN
|
[none]
|
RV1594
|
0.984
|
pyridine nucleotide biosynthesis
|
|
NAD(+) synthase (glutamine-hydrolysing)
|
6.3.5.1
|
RV2438C
|
0.931
|
pyridine nucleotide biosynthesis
|
|
Nicotinate-nucleotide adenylyltransferase
|
2.7.7.18
|
RV2421C
|
0.987
|
pyridine nucleotide biosynthesis
|
|
NAD(+) kinase
|
2.7.1.23
|
RV1695
|
0.943
|
NAD phosphorylation and dephosphorylation
|
|
Uroporphyrinogen-III synthase
|
4.2.1.75
|
RV0511
|
0.999
|
biosynthesis of proto- and siroheme
|
|
Dephospho-CoA kinase
|
2.7.1.24
|
RV1631
|
0.984
|
pantothenate and coenzyme A biosynthesis
|
|
Isopentenyl-diphosphate delta-isomerase
|
5.3.3.2
|
RV1745C
|
0.941
|
polyisoprenoid biosynthesis
|
|
octaprenyl diphosphate synthase
|
2.5.1.-
|
RV3398C
|
0.960
|
polyisoprenoid biosynthesis
|
|
Precorrin-6Y C5,15-methyltransferase (decarboxylating)
|
2.1.1.132
|
RV2072C
|
0.985
|
cobalamin biosynthesis, aerobic pathway
|
|
Precorrin-3B C17-methyltransferase
|
2.1.1.131
|
RV2066
|
0.994
|
cobalamin biosynthesis, aerobic pathway
|
|
Precorrin-2 C20-methyltransferase
|
2.1.1.130
|
RV2066
|
0.989
|
cobalamin biosynthesis, aerobic pathway
|
|
Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase
|
2.4.2.21
|
RV2207
|
0.998
|
cobalamin biosynthesis
|
|
RIBAZOLEPHOSPHAT-RXN
|
3.1.3.-
|
RV2228C
|
0.777
|
cobalamin biosynthesis
|
|
Dihydrofolate synthase
|
6.3.2.12
|
RV2447C
|
0.967
|
folic acid biosynthesis ,
formylTHF biosynthesis
|
|
FORMYLTHFGLUSYNTH-RXN
|
[none]
|
RV2447C
|
0.777
|
formylTHF biosynthesis
|
|
PHOSGLUCOSAMINEMUT-RXN
|
[none]
|
RV3441C
|
0.882
|
dissimilation of N-acetylglucosamine, N-acetylmannosamine and N-acetylneuraminic acid ,
UDP-N-acetylglucosamine biosynthesis
|
|
PHOSNACMURPENTATRANS-RXN
|
[none]
|
RV2156C
|
0.999
|
peptidoglycan biosynthesis
|
|
FCLEPIM-RXN
|
5.-.-.-
|
RV1512
|
0.999
|
colanic acid building blocks biosynthesis
|
|
FCLREDUCT-RXN
|
1.-.-.-
|
RV1512
|
0.984
|
colanic acid building blocks biosynthesis
|
|
Dihydroxy-acid dehydratase
|
4.2.1.9
|
RV0189C
|
0.997
|
valine biosynthesis
|
|
Phosphoribosylanthranilate isomerase
|
5.3.1.24
|
RV1611
|
0.761
|
tryptophan biosynthesis
|
|
Phosphoserine aminotransferase
|
2.6.1.52
|
RV0884C
|
0.987
|
serine biosynthesis ,
cysteine biosynthesis II
|
|
Chorismate mutase
|
5.4.99.5
|
RV3838C
|
1.000
|
phenylalanine biosynthesis, Bacillus subtilis
|
|
Histidinol-phosphatase
|
3.1.3.15
|
RV1601
|
0.993
|
histidine biosynthesis I
|
|
Asparagine synthase (glutamine-hydrolysing)
|
6.3.5.4
|
RV2201
|
0.998
|
asparagine - aspartate pathway
|
|
Amino-acid N-acetyltransferase
|
2.3.1.1
|
RV1653
|
1.000
|
arginine biosynthesis, Bacillus subtilis
|
|
Shikimate 5-dehydrogenase
|
1.1.1.25
|
RV2552C
|
0.644
|
chorismate biosynthesis
|