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Prior-Knowledge Description Expectation Prediction Conclusion Leaf Statistics
UCR00271 2-oxoglutarate + H(2)O + acetyl-CoA = (R)-homocitrate + CoA None - {{∅}} None - {{∅}} Unexplained
UER00020 LL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate (succinylase route): step 2/3~1 L-2-succinylamino-6-oxopimelate + 1 L-glutamate => 1 2-oxoglutarate + 1 N-succinyl-LL-2,6-diaminopimelate. True - {{t}} True - {{t}} Confirmed presence
UCR02733 H(2)O + N-acetyl-LL-2,6-diaminopimelate = LL-2,6-diaminopimelate + acetate True - {{t}} True - {{t}} Confirmed presence
UER00023 LL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate (acetylase route): step 2/3~1 (S)-2-acetamido-6-oxopimelate + 1 L-glutamate => 1 2-oxoglutarate + 1 N-acetyl-LL-2,6-diaminopimelate. True - {{t}} None - {{∅}} Missing
UCR02755 DL-2,6-diaminopimelate + H(2)O + NADP(+) = (S)-2-amino-6-oxopimelate + H(+) + NADPH + NH(3) True - {{t}} None - {{∅}} Missing
UCR09777 H(+) + NADPH + [LysW]-L-2-aminoadipyl 6-phosphate = NADP(+) + [LysW]-L-2-aminoadipate 6-semialdehyde + phosphate None - {{∅}} None - {{∅}} Unexplained
UCR09779 H(2)O + [LysW]-L-lysine = L-lysine + [LysW] None - {{∅}} None - {{∅}} Unexplained
UER00018 (S)-tetrahydrodipicolinate from L-aspartate: step 4/4~(2S,4S)-4-hydroxy-2,3,4,5-tetrahydrodipicolinate + H(+) + [NADH or NADPH] => (S)-tetrahydrodipicolinate + H(2)O + [NAD(+) or NADP(+)]. True - {{t}} None - {{∅}} Missing
UER00024 LL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate (acetylase route): step 3/3~1 H(2)O + 1 N-acetyl-LL-2,6-diaminopimelate => 1 LL-2,6-diaminopimelate + 1 acetate. True - {{t}} True - {{t}} Confirmed presence
UER00032 L-lysine from L-alpha-aminoadipate (fungal route): step 1/3~1 ATP + 1 H(+) + 1 L-alpha-aminoadipate + 1 NADPH => 1 AMP + 1 L-2-aminoadipate 6-semialdahyde + 1 NADP(+) + 1 diphosphate + 1 holo-Lys2. None - {{∅}} None - {{∅}} Unexplained
UCR04371 homoisocitrate = H(2)O + homo-cis-aconitate None - {{∅}} None - {{∅}} Unexplained
VariantPath-2-UER00018 True - {{t}} None - {{∅}} Missing
UER01028 None~1 (2S,4S)-4-hydroxy-2,3,4,5-tetrahydrodipicolinate + 1 H(+) + 1 NADH => 1 (S)-tetrahydrodipicolinate + 1 H(2)O + 1 NAD(+). True - {{t}} None - {{∅}} Missing
UER00031 L-alpha-aminoadipate from 2-oxoglutarate: step 5/5~1 2-oxoadipate + 1 L-glutamate => 1 2-oxoglutarate + 1 L-alpha-aminoadipate. None - {{∅}} None - {{∅}} Unexplained
UCR04336 (S)-2-amino-6-oxopimelate = (S)-tetrahydrodipicolinate + H(2)O True - {{t}} None - {{∅}} Missing
UER00038 L-lysine from L-alpha-aminoadipate (Thermus route): step 4/5~1 L-glutamate + 1 [LysW]-L-2-aminoadipate 6-semialdehyde => 1 2-oxoglutarate + 1 [LysW]-L-lysine. None - {{∅}} None - {{∅}} Unexplained
UER00027 L-lysine from DL-2,6-diaminopimelate: step 1/1~1 DL-2,6-diaminopimelate => 1 CO(2) + 1 L-lysine. True - {{t}} True - {{t}} Confirmed presence
UER00039 L-lysine from L-alpha-aminoadipate (Thermus route): step 5/5~1 H(2)O + 1 [LysW]-L-lysine => 1 L-lysine + 1 [LysW]. None - {{∅}} None - {{∅}} Unexplained
UER00030 L-alpha-aminoadipate from 2-oxoglutarate: step 4/5~1 NAD(+) + 1 homoisocitrate => 1 2-oxoadipate + 1 CO(2) + 1 H(+) + 1 NADH. None - {{∅}} None - {{∅}} Unexplained
UCR03444 (R)-homocitrate = H(2)O + homo-cis-aconitate None - {{∅}} None - {{∅}} Unexplained
VariantPath-4-UPA00034 True - {{t}} None - {{∅},{t}} Missing
UCR04475 2-oxoglutarate + N-succinyl-LL-2,6-diaminopimelate = L-2-succinylamino-6-oxopimelate + L-glutamate True - {{t}} True - {{t}} Confirmed presence
VariantPath-3-UPA00034 True - {{t}} None - {{∅},{t}} Missing
UCR01936 2-oxaloglutaric acid = 2-oxoadipate + CO(2) None - {{∅}} None - {{∅}} Unexplained
VariantPath-1-UPA00034 True - {{t}} None - {{∅},{t}} Missing
UCR04198 (S)-tetrahydrodipicolinate + H(2)O + NAD(+) = (2S,4S)-4-hydroxy-2,3,4,5-tetrahydrodipicolinate + H(+) + NADH True - {{t}} None - {{∅}} Missing
UCR02291 L-aspartate 4-semialdehyde + NADP(+) + phosphate = 4-phospho-L-aspartate + H(+) + NADPH True - {{t}} True - {{t}} Confirmed presence
VariantPath-2-UPA00034 True - {{t}} None - {{∅},{t}} Missing
UCR04467 2-oxoglutarate + N-acetyl-LL-2,6-diaminopimelate = (S)-2-acetamido-6-oxopimelate + L-glutamate True - {{t}} None - {{∅}} Missing
UPA00034 L-lysine biosynthesis via DAP pathway~Biosynthesis of L-lysine through the diaminopimelate (DAP) pathway. <br> The L-lysine is synthesized from L-aspartate and pyruvate through diaminopimelate via four variants. <br> This pathway is utilised by most bacteria, some archaea, some fungi, some algae, and higher plants.<br> In bacteria, DAP is not only a direct precursor of lysine, but it is also an important constituent of the cell wall peptidoglycan. <br> The DAP pathway is of special interest for pharmacology, since the absence of DAP in mammalian cells allows for the use of the DAP biosynthetic genes as a bacteria-specific drug target. <br> Most bacteria use only one of the four variants, although certain bacteria, such as <i>C. glutamicum </i> and <i>Bacillus macerans</i>, possess both the succinylase and dehydrogenase pathways. True - {{t}} None - {{∅},{t}} Missing
UER00021 LL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate (succinylase route): step 3/3~1 H(2)O + 1 N-succinyl-LL-2,6-diaminopimelate => 1 LL-2,6-diaminopimelate + 1 succinate. True - {{t}} None - {{∅}} Missing
UER00035 L-lysine from L-alpha-aminoadipate (Thermus route): step 1/5~1 ATP + 1 L-alpha-aminoadipate + 1 [LysW] => 1 ADP + 1 [LysW]-L-2-aminoadipate + 1 phosphate. None - {{∅}} None - {{∅}} Unexplained
UER01027 L-alpha-aminoadipate from 2-oxoglutarate: step 3/5~1 H(2)O + 1 homo-cis-aconitate => 1 homoisocitrate. None - {{∅}} None - {{∅}} Unexplained
ULS00008 LL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate (acetylase route) True - {{t}} None - {{∅},{t}} Missing
UER00029 L-alpha-aminoadipate from 2-oxoglutarate: step 2/5~1 (R)-homocitrate => 1 H(2)O + 1 homo-cis-aconitate. None - {{∅}} None - {{∅}} Unexplained
UCR04862 NAD(+) + homoisocitrate = 2-oxaloglutaric acid + H(+) + NADH None - {{∅}} None - {{∅}} Unexplained
UER00033 L-lysine from L-alpha-aminoadipate (fungal route): step 2/3~1 H(+) + 1 L-2-aminoadipate 6-semialdahyde + 1 L-glutamate + 1 NADPH => 1 H(2)O + 1 NADP(+) + 1 saccharopine. None - {{∅}} None - {{∅}} Unexplained
MUER21 Meta-UER 21~1 4-phospho-L-aspartate + 1 H(+) + 1 NADPH => 1 L-aspartate 4-semialdehyde + 1 NADP(+) + 1 phosphate. True - {{t}} True - {{t}} Confirmed presence
UCR02734 H(2)O + N-succinyl-LL-2,6-diaminopimelate = LL-2,6-diaminopimelate + succinate True - {{t}} None - {{∅}} Missing
ULS00006 (S)-tetrahydrodipicolinate from L-aspartate True - {{t}} None - {{∅},{t}} Missing
UCR09778 L-glutamate + [LysW]-L-2-aminoadipate 6-semialdehyde = 2-oxoglutarate + [LysW]-L-lysine None - {{∅}} None - {{∅}} Unexplained
UCR07613 2-oxoglutarate + LL-2,6-diaminopimelate = (S)-tetrahydrodipicolinate + H(2)O + L-glutamate True - {{t}} True - {{t}} Confirmed presence
UER00019 LL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate (succinylase route): step 1/3~1 (S)-tetrahydrodipicolinate + 1 H(2)O + 1 succinyl-CoA => 1 CoA + 1 L-2-succinylamino-6-oxopimelate. True - {{t}} None - {{∅}} Missing
ULS00010 DL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate True - {{t}} None - {{∅}} Missing
UCR02735 LL-2,6-diaminopimelate = DL-2,6-diaminopimelate True - {{t}} True - {{t}} Confirmed presence
UER00034 L-lysine from L-alpha-aminoadipate (fungal route): step 3/3~1 H(2)O + 1 NAD(+) + 1 saccharopine => 1 2-oxoglutarate + 1 H(+) + 1 L-lysine + 1 NADH. None - {{∅}} None - {{∅}} Unexplained
UCR09776 ATP + [LysW]-L-2-aminoadipate = ADP + [LysW]-L-2-aminoadipyl 6-phosphate None - {{∅}} None - {{∅}} Unexplained
UER00466 LL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate (aminotransferase route): step 1/1~1 (S)-tetrahydrodipicolinate + 1 H(2)O + 1 L-glutamate => 1 2-oxoglutarate + 1 LL-2,6-diaminopimelate. True - {{t}} True - {{t}} Confirmed presence
UCR04863 alpha-aminoadipoyl-C6-AMP + holo-Lys2 = AMP + alpha-aminoadipoyl-S-acyl enzyme None - {{∅}} None - {{∅}} Unexplained
UCR04390 H(+) + NADPH + alpha-aminoadipoyl-S-acyl enzyme = L-2-aminoadipate 6-semialdahyde + NADP(+) + holo-Lys2 None - {{∅}} None - {{∅}} Unexplained
UCR00451 DL-2,6-diaminopimelate = CO(2) + L-lysine True - {{t}} True - {{t}} Confirmed presence
UER00017 (S)-tetrahydrodipicolinate from L-aspartate: step 3/4~1 L-aspartate 4-semialdehyde + 1 pyruvate => 1 (2S,4S)-4-hydroxy-2,3,4,5-tetrahydrodipicolinate + 1 H(2)O. True - {{t}} True - {{t}} Confirmed presence
UPA00404 L-lysine biosynthesis~This pathway represents the biosynthesis of the basic amino-acid L-lysine. L-lysine biosynthesis is peculiar because it has two different anabolic routes that evolved separately in organisms, the diaminopimelate (DAP) and aminoadipate (AAA) pathways. The DAP pathway synthesizes L-lysine from aspartate and pyruvate, and diaminopimelate is an intermediate. The DAP pathway is utilised by most bacteria, some archaea, some fungi, some algae, and plants. The AAA pathway synthesizes L-lysine from 2-oxoglutarate (alpha-ketoglutarate) and acetyl coenzyme A (acetyl-CoA), and L-alpha-aminoadipate is an intermediate. The AAA pathway is utilised by most fungi, some algae, the bacterium Thermus thermophilus, and probably some archaea, such as Sulfolobus, Thermoproteus, and Pyrococcus [source: InterPro]. No organism is known to possess both pathways [PMID:20418392]. L-lysine is one of the 10 essential amino-acids that mammals are unable to synthesize, and must therefore acquire in their diets. True - {{t}} None - {{∅},{t}} Missing
UCR00715 H(2)O + NAD(+) + saccharopine = 2-oxoglutarate + H(+) + L-lysine + NADH None - {{∅}} None - {{∅}} Unexplained
ULS00013 L-lysine from L-alpha-aminoadipate (fungal route) None - {{∅}} None - {{∅}} Unexplained
MUER12 Meta-UER 12~1 ATP + 1 L-aspartate => 1 4-phospho-L-aspartate + 1 ADP. True - {{t}} True - {{t}} Confirmed presence
UCR09775 ATP + L-alpha-aminoadipate + [LysW] = ADP + [LysW]-L-2-aminoadipate + phosphate None - {{∅}} None - {{∅}} Unexplained
UER00036 L-lysine from L-alpha-aminoadipate (Thermus route): step 2/5~1 ATP + 1 [LysW]-L-2-aminoadipate => 1 ADP + 1 [LysW]-L-2-aminoadipyl 6-phosphate. None - {{∅}} None - {{∅}} Unexplained
UCR01939 2-oxoglutarate + L-alpha-aminoadipate = 2-oxoadipate + L-glutamate False - {{∅},{f}} None - {{∅}} Absent
UER00022 LL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate (acetylase route): step 1/3~1 (S)-tetrahydrodipicolinate + 1 H(2)O + 1 acetyl-CoA => 1 (S)-2-acetamido-6-oxopimelate + 1 CoA. True - {{t}} True - {{t}} Confirmed presence
ULS00014 L-lysine from L-alpha-aminoadipate (Thermus route) None - {{∅}} None - {{∅}} Unexplained
UER00025 DL-2,6-diaminopimelate from LL-2,6-diaminopimelate: step 1/1~1 LL-2,6-diaminopimelate => 1 DL-2,6-diaminopimelate. True - {{t}} True - {{t}} Confirmed presence
UER00026 DL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate: step 1/1~1 (S)-tetrahydrodipicolinate + 1 H(+) + 1 H(2)O + 1 NADPH + 1 NH(3) => 1 DL-2,6-diaminopimelate + 1 NADP(+). True - {{t}} None - {{∅}} Missing
UER00037 L-lysine from L-alpha-aminoadipate (Thermus route): step 3/5~1 H(+) + 1 NADPH + 1 [LysW]-L-2-aminoadipyl 6-phosphate => 1 NADP(+) + 1 [LysW]-L-2-aminoadipate 6-semialdehyde + 1 phosphate. None - {{∅}} None - {{∅}} Unexplained
UPA00033 L-lysine biosynthesis via AAA pathway~Biosynthesis of L-lysine through the alpha-amino adipic acid (AAA) pathway. It was first believed that this pathway was a specific character of fungi. In 1998, a gene cluster of a thermophilic bacterium (Thermus thermophilus) was shown to synthesize L-lysine through the AAA pathway. This pathway is present in hyperthermophilic archaea too (P. horikoshii and P. abyssi). Hence, this pathway is distributed among the three super-kingdoms as proposed by Woese and Fox in 1997 [PMID:270744]. None - {{∅}} None - {{∅}} Unexplained
ULS00009 DL-2,6-diaminopimelate from LL-2,6-diaminopimelate True - {{t}} True - {{t}} Confirmed presence
UCR00480 ATP + L-aspartate = 4-phospho-L-aspartate + ADP True - {{t}} True - {{t}} Confirmed presence
UCR04199 (S)-tetrahydrodipicolinate + H(2)O + NADP(+) = (2S,4S)-4-hydroxy-2,3,4,5-tetrahydrodipicolinate + H(+) + NADPH True - {{t}} None - {{∅}} Missing
ULS00227 LL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate (aminotransferase route) True - {{t}} True - {{t}} Confirmed presence
UCR10147 L-aspartate 4-semialdehyde + pyruvate = (2S,4S)-4-hydroxy-2,3,4,5-tetrahydrodipicolinate + H(2)O True - {{t}} True - {{t}} Confirmed presence
UER00028 L-alpha-aminoadipate from 2-oxoglutarate: step 1/5~1 2-oxoglutarate + 1 H(2)O + 1 acetyl-CoA => 1 (R)-homocitrate + 1 CoA. None - {{∅}} None - {{∅}} Unexplained
UCR04365 (S)-tetrahydrodipicolinate + H(2)O + succinyl-CoA = CoA + L-2-succinylamino-6-oxopimelate True - {{t}} None - {{∅}} Missing
ULS00011 L-lysine from DL-2,6-diaminopimelate True - {{t}} True - {{t}} Confirmed presence
VariantPath-1-UER00018 True - {{t}} None - {{∅}} Missing
ULS00012 L-alpha-aminoadipate from 2-oxoglutarate None - {{∅}} None - {{∅}} Unexplained
VariantPath-1-UPA00033 None - {{∅}} None - {{∅}} Unexplained
VariantPath-2-UPA00033 None - {{∅}} None - {{∅}} Unexplained
UCR02315 H(2)O + NADP(+) + saccharopine = H(+) + L-2-aminoadipate 6-semialdahyde + L-glutamate + NADPH None - {{∅}} None - {{∅}} Unexplained
UCR03098 ATP + L-alpha-aminoadipate = alpha-aminoadipoyl-C6-AMP + diphosphate None - {{∅}} None - {{∅}} Unexplained
UER01029 None~1 (2S,4S)-4-hydroxy-2,3,4,5-tetrahydrodipicolinate + 1 H(+) + 1 NADPH => 1 (S)-tetrahydrodipicolinate + 1 H(2)O + 1 NADP(+). True - {{t}} None - {{∅}} Missing
UCR04364 (S)-tetrahydrodipicolinate + H(2)O + acetyl-CoA = (S)-2-acetamido-6-oxopimelate + CoA True - {{t}} True - {{t}} Confirmed presence
ULS00007 LL-2,6-diaminopimelate from (S)-tetrahydrodipicolinate (succinylase route) True - {{t}} None - {{∅},{t}} Missing