diff --git a/KEGG_MODULES/M00910_Phenylalanine_biosynthesis.txt b/KEGG_MODULES/M00910_Phenylalanine_biosynthesis.txt new file mode 100644 index 0000000..6c25f26 --- /dev/null +++ b/KEGG_MODULES/M00910_Phenylalanine_biosynthesis.txt @@ -0,0 +1,29 @@ +ENTRY M00910 Pathway Module +NAME Phenylalanine biosynthesis, chorismate => arogenate => phenylalanine +DEFINITION K01850 K15849 K05359 +ORTHOLOGY K01850 chorismate mutase [EC:5.4.99.5] [RN:R01715] + K15849 bifunctional aspartate aminotransferase and glutamate/aspartate-prephenate aminotransferase [EC:2.6.1.78 2.6.1.79] [RN:R01731 R07276] + K05359 arogenate dehydratase [EC:4.2.1.91 4.2.1.51] [RN:R00691] +CLASS Pathway modules; Amino acid metabolism; Aromatic amino acid metabolism +PATHWAY map00400 Phenylalanine, tyrosine and tryptophan biosynthesis + map01230 Biosynthesis of amino acids + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R01715 C00251 -> C00254 + R01731,R07276 C00254 -> C00826 + R00691 C00826 -> C00079 +COMPOUND C00251 Chorismate + C00254 Prephenate + C00826 L-Arogenate + C00079 L-Phenylalanine +REFERENCE PMID:22554242 + AUTHORS Maeda H, Dudareva N + TITLE The shikimate pathway and aromatic amino Acid biosynthesis in plants. + JOURNAL Annu Rev Plant Biol 63:73-105 (2012) + DOI:10.1146/annurev-arplant-042811-105439 +REFERENCE PMID:22303258 + AUTHORS Tzin V, Galili G + TITLE The Biosynthetic Pathways for Shikimate and Aromatic Amino Acids in Arabidopsis thaliana. + JOURNAL Arabidopsis Book 8:e0132 (2010) + DOI:10.1199/tab.0132 +/// diff --git a/KEGG_MODULES/M00911_Riboflavin_biosynthesis_fungi.txt b/KEGG_MODULES/M00911_Riboflavin_biosynthesis_fungi.txt new file mode 100644 index 0000000..7a84ba1 --- /dev/null +++ b/KEGG_MODULES/M00911_Riboflavin_biosynthesis_fungi.txt @@ -0,0 +1,43 @@ +ENTRY M00911 Pathway Module +NAME Riboflavin biosynthesis, fungi, GTP => riboflavin/FMN/FAD +DEFINITION K01497 K14654 K14655 -- + K02858 + K00794 K00793 K00861 K00953 +ORTHOLOGY K01497 GTP cyclohydrolase II [EC:3.5.4.25] [RN:R00425] + K14654 2,5-diamino-6-(ribosylamino)-4(3H)-pyrimidinone 5'-phosphate reductase [EC:1.1.1.302] [RN:R09375 R09376] + K14655 2,5-diamino-6-(5-phospho-D-ribitylamino)-pyrimidin-4(3H)-one deaminase [RN:R09377] + K02858 3,4-dihydroxy 2-butanone 4-phosphate synthase [EC:4.1.99.12] [RN:R07281] + K00794 6,7-dimethyl-8-ribityllumazine synthase [EC:2.5.1.78] [RN:R04457] + K00793 riboflavin synthase [EC:2.5.1.9] [RN:R00066] + K00861 riboflavin kinase [EC:2.7.1.26] [RN:R00549] + K00953 FAD synthetase [EC:2.7.7.2] [RN:R00161] +CLASS Pathway modules; Metabolism of cofactors and vitamins; Cofactor and vitamin metabolism +PATHWAY map00740 Riboflavin metabolism + map01240 Biosynthesis of cofactors + map01100 Metabolic pathways +REACTION R00425 C00044 -> C01304 + R09375,R09376 C01304 -> C18910 + R09377 C18910 -> C04454 + R07280 C04454 -> C04732 + R07281 C00199 -> C15556 + R04457 C04732 + C15556 -> C04332 + R00066 C04332 -> C00255 + R00549 C00255 -> C00061 + R00161 C00061 -> C00016 +COMPOUND C00044 GTP + C01304 2,5-Diamino-6-(5-phospho-D-ribosylamino)pyrimidin-4(3H)-one + C18910 2,5-Diamino-6-(5-phospho-D-ribitylamino)pyrimidin-4(3H)-one + C04454 5-Amino-6-(5'-phospho-D-ribitylamino)uracil + C04732 5-Amino-6-(1-D-ribitylamino)uracil + C00199 D-Ribulose 5-phosphate + C15556 L-3,4-Dihydroxybutan-2-one 4-phosphate + C04332 6,7-Dimethyl-8-(D-ribityl)lumazine + C00255 Riboflavin + C00061 FMN + C00016 FAD +REFERENCE PMID:10940330 + AUTHORS Bacher A, Eberhardt S, Fischer M, Kis K, Richter G + TITLE Biosynthesis of vitamin b2 (riboflavin). + JOURNAL Annu Rev Nutr 20:153-67 (2000) + DOI:10.1146/annurev.nutr.20.1.153 +/// diff --git a/KEGG_MODULES/M00912_NAD_biosynthesis.txt b/KEGG_MODULES/M00912_NAD_biosynthesis.txt new file mode 100644 index 0000000..9d6a06c --- /dev/null +++ b/KEGG_MODULES/M00912_NAD_biosynthesis.txt @@ -0,0 +1,53 @@ +ENTRY M00912 Pathway Module +NAME NAD biosynthesis, tryptophan => quinolinate => NAD +DEFINITION (K00453,K00463) (K01432,K14263,K07130) K00486 K01556 K00452 K00767 (K00969,K06210) (K01916,K01950) +ORTHOLOGY K00453 tryptophan 2,3-dioxygenase [EC:1.13.11.11] [RN:R00678] + K00463 indoleamine 2,3-dioxygenase [EC:1.13.11.52] [RN:R00678] + K01432,K14263,K07130 kynurenine formamidase [EC:3.5.1.9] [RN:R01959] + K00486 kynurenine 3-monooxygenase [EC:1.14.13.9] [RN:R01960] + K01556 kynureninase [EC:3.7.1.3] [RN:R02668] + K00452 3-hydroxyanthranilate 3,4-dioxygenase [EC:1.13.11.6] [RN:R02665] + K00767 nicotinate-nucleotide pyrophosphorylase (carboxylating) [EC:2.4.2.19] [RN:R03348] + K00969,K06210 nicotinate-nucleotide adenylyltransferase [EC:2.7.7.18] [RN:R03005] + K01916 NAD+ synthase [EC:6.3.1.5] [RN:R00189] + K01950 NAD+ synthase (glutamine-hydrolysing) [EC:6.3.5.1] [RN:R00257] +CLASS Pathway modules; Metabolism of cofactors and vitamins; Cofactor and vitamin metabolism +PATHWAY map00380 Tryptophan metabolism + map00760 Nicotinate and nicotinamide metabolism + map01240 Biosynthesis of cofactors + map01100 Metabolic pathways +REACTION R00678 C00078 -> C02700 + R01959 C02700 -> C00328 + R01960 C00328 -> C03227 + R02668 C03227 -> C00632 + R02665 C00632 -> C04409 + R04293 C04409 -> C03722 + R03348 C03722 -> C01185 + R03005 C01185 -> C00857 + R00189,R00257 C00857 -> C00003 +COMPOUND C00078 L-Tryptophan + C02700 L-Formylkynurenine + C00328 L-Kynurenine + C03227 3-Hydroxy-L-kynurenine + C00632 3-Hydroxyanthranilate + C04409 2-Amino-3-carboxymuconate semialdehyde + C03722 Quinolinate + C01185 Nicotinate D-ribonucleotide + C00857 Deamino-NAD+ + C00003 NAD+ +REFERENCE PMID:12062417 + AUTHORS Panozzo C, Nawara M, Suski C, Kucharczyka R, Skoneczny M, Becam AM, Rytka J, Herbert CJ + TITLE Aerobic and anaerobic NAD+ metabolism in Saccharomyces cerevisiae. + JOURNAL FEBS Lett 517:97-102 (2002) + DOI:10.1016/s0014-5793(02)02585-1 +REFERENCE PMID:18205391 + AUTHORS Wogulis M, Chew ER, Donohoue PD, Wilson DK + TITLE Identification of formyl kynurenine formamidase and kynurenine aminotransferase from Saccharomyces cerevisiae using crystallographic, bioinformatic and biochemical evidence. + JOURNAL Biochemistry 47:1608-21 (2008) + DOI:10.1021/bi701172v +REFERENCE PMID:14700627 + AUTHORS Kurnasov O, Goral V, Colabroy K, Gerdes S, Anantha S, Osterman A, Begley TP + TITLE NAD biosynthesis: identification of the tryptophan to quinolinate pathway in bacteria. + JOURNAL Chem Biol 10:1195-204 (2003) + DOI:10.1016/j.chembiol.2003.11.011 +/// diff --git a/KEGG_MODULES/M00913_Pantothenate_biosynthesis.txt b/KEGG_MODULES/M00913_Pantothenate_biosynthesis.txt new file mode 100644 index 0000000..9f90fdf --- /dev/null +++ b/KEGG_MODULES/M00913_Pantothenate_biosynthesis.txt @@ -0,0 +1,36 @@ +ENTRY M00913 Pathway Module +NAME Pantothenate biosynthesis, 2-oxoisovalerate/spermine => pantothenate +DEFINITION K00606 K00077 + K13367 K00128 + K01918 +ORTHOLOGY K00606 3-methyl-2-oxobutanoate hydroxymethyltransferase [EC:2.1.2.11] [RN:R01226] + K00077 2-dehydropantoate 2-reductase [EC:1.1.1.169] [RN:R02472] + K13367 polyamine oxidase [EC:1.5.3.17] [RN:R09076] + K00128 aldehyde dehydrogenase (NAD+) [EC:1.2.1.3] [RN:R00904] + K01918 pantoate--beta-alanine ligase [EC:6.3.2.1] [RN:R02473] +CLASS Pathway modules; Metabolism of cofactors and vitamins; Cofactor and vitamin metabolism +PATHWAY map00770 Pantothenate and CoA biosynthesis + map01240 Biosynthesis of cofactors + map01100 Metabolic pathways +REACTION R01226 C00141 -> C00966 + R02472 C00966 -> C00522 + R09076 C00750 -> C05665 + R00904 C05665 -> C00099 + R02473 C00522 + C00099 -> C00864 +COMPOUND C00141 3-Methyl-2-oxobutanoic acid + C00966 2-Dehydropantoate + C00522 (R)-Pantoate + C00750 Spermine + C05665 3-Aminopropanal + C00099 beta-Alanine + C00864 Pantothenate +REFERENCE PMID:11154694 + AUTHORS White WH, Gunyuzlu PL, Toyn JH + TITLE Saccharomyces cerevisiae is capable of de Novo pantothenic acid biosynthesis involving a novel pathway of beta-alanine production from spermine. + JOURNAL J Biol Chem 276:10794-800 (2001) + DOI:10.1074/jbc.M009804200 +REFERENCE PMID:12586697 + AUTHORS White WH, Skatrud PL, Xue Z, Toyn JH + TITLE Specialization of function among aldehyde dehydrogenases: the ALD2 and ALD3 genes are required for beta-alanine biosynthesis in Saccharomyces cerevisiae. + JOURNAL Genetics 163:69-77 (2003) +/// diff --git a/KEGG_MODULES/M00914_Coenzyme_A_biosynthesis_archaea.txt b/KEGG_MODULES/M00914_Coenzyme_A_biosynthesis_archaea.txt new file mode 100644 index 0000000..6f957c9 --- /dev/null +++ b/KEGG_MODULES/M00914_Coenzyme_A_biosynthesis_archaea.txt @@ -0,0 +1,37 @@ +ENTRY M00914 Pathway Module +NAME Coenzyme A biosynthesis, archaea, 2-oxoisovalerate => 4-phosphopantoate => CoA +DEFINITION K00606 K00077 K06982 K09722 K13038 K02201 K09735 +ORTHOLOGY K00606 3-methyl-2-oxobutanoate hydroxymethyltransferase [EC:2.1.2.11] [RN:R01226] + K00077 2-dehydropantoate 2-reductase [EC:1.1.1.169] [RN:R02472] + K06982 pantoate kinase [EC:2.7.1.169] [RN:R09378] + K09722 4-phosphopantoate---beta-alanine ligase [EC:6.3.2.36] [RN:R09379] + K13038 phosphopantothenoylcysteine decarboxylase / phosphopantothenate---cysteine ligase [EC:4.1.1.36 6.3.2.5] [RN:R04231 R03269] + K02201 pantetheine-phosphate adenylyltransferase [EC:2.7.7.3] [RN:R03035] + K09735 GTP-dependent dephospho-CoA kinase [EC:2.7.1.-] [RN:R12608] +CLASS Pathway modules; Metabolism of cofactors and vitamins; Cofactor and vitamin metabolism +PATHWAY map00770 Pantothenate and CoA biosynthesis + map01240 Biosynthesis of cofactors + map01100 Metabolic pathways +REACTION R01226 C00141 -> C00966 + R02472 C00966 -> C00522 + R09378 C00522 -> C18911 + R09379 C18911 -> C03492 + R04231 C03492 -> C04352 + R03269 C04352 -> C01134 + R03035 C01134 -> C00882 + R12608 C00882 -> C00010 +COMPOUND C00141 3-Methyl-2-oxobutanoic acid + C00966 2-Dehydropantoate + C00522 (R)-Pantoate + C18911 (R)-4-Phosphopantoate + C03492 D-4'-Phosphopantothenate + C04352 (R)-4'-Phosphopantothenoyl-L-cysteine + C01134 Pantetheine 4'-phosphate + C00882 Dephospho-CoA + C00010 CoA +REFERENCE PMID:31337720 + AUTHORS Shimosaka T, Makarova KS, Koonin EV, Atomi H + TITLE Identification of Dephospho-Coenzyme A (Dephospho-CoA) Kinase in Thermococcus kodakarensis and Elucidation of the Entire CoA Biosynthesis Pathway in Archaea. + JOURNAL mBio 10:e01146-19 (2019) + DOI:10.1128/mBio.01146-19 +/// diff --git a/KEGG_MODULES/M00915_Caffeine_degradation.txt b/KEGG_MODULES/M00915_Caffeine_degradation.txt new file mode 100644 index 0000000..83a4c70 --- /dev/null +++ b/KEGG_MODULES/M00915_Caffeine_degradation.txt @@ -0,0 +1,31 @@ +ENTRY M00915 Pathway Module +NAME Caffeine degradation, caffeine => xanthine +DEFINITION K21722 K21723 K21724 +ORTHOLOGY K21722 ndmA; methylxanthine N1-demethylase [EC:1.14.13.178] [RN:R07957 R07958 R07955 R07956] + K21723 ndmB; methylxanthine N3-demethylase [EC:1.14.13.179] [RN:R07954 R07939 R07961 R07962] + K21724 ndmC; 7-methylxanthine demethylase [EC:1.14.13.128] [RN:R07965 R07966] +CLASS Pathway modules; Xenobiotics biodegradation; Aromatics degradation +PATHWAY map00232 Caffeine metabolism + map01100 Metabolic pathways + map01120 Microbial metabolism in diverse environments +REACTION R07954,R07939 C07481 -> C13747 + R07957,R07958 C13747 -> C16353 + R07955,R07956 C07481 -> C07480 + R07961,R07962 C07480 -> C16353 + R07965,R07966 C16353 -> C00385 +COMPOUND C07481 Caffeine + C13747 1,7-Dimethylxanthine + C16353 7-Methylxanthine + C07480 Theobromine + C00385 Xanthine +REFERENCE PMID:22328667 + AUTHORS Summers RM, Louie TM, Yu CL, Gakhar L, Louie KC, Subramanian M + TITLE Novel, highly specific N-demethylases enable bacteria to live on caffeine and related purine alkaloids. + JOURNAL J Bacteriol 194:2041-9 (2012) + DOI:10.1128/JB.06637-11 +REFERENCE PMID:19447909 + AUTHORS Yu CL, Louie TM, Summers R, Kale Y, Gopishetty S, Subramanian M + TITLE Two distinct pathways for metabolism of theophylline and caffeine are coexpressed in Pseudomonas putida CBB5. + JOURNAL J Bacteriol 191:4624-32 (2009) + DOI:10.1128/JB.00409-09 +/// diff --git a/KEGG_MODULES/M00916_Pyridoxal-P_biosynthesis.txt b/KEGG_MODULES/M00916_Pyridoxal-P_biosynthesis.txt new file mode 100644 index 0000000..4f3b975 --- /dev/null +++ b/KEGG_MODULES/M00916_Pyridoxal-P_biosynthesis.txt @@ -0,0 +1,30 @@ +ENTRY M00916 Pathway Module +NAME Pyridoxal-P biosynthesis, R5P + glyceraldehyde-3P + glutamine => pyridoxal-P +DEFINITION (K06215+K08681) +ORTHOLOGY K06215 pdxS; pyridoxal 5'-phosphate synthase pdxS subunit [EC:4.3.3.6] [RN:R10089] + K08681 pdxT; pyridoxal 5'-phosphate synthase pdxT subunit [EC:4.3.3.6] [RN:R10089] +CLASS Pathway modules; Metabolism of cofactors and vitamins; Cofactor and vitamin metabolism +PATHWAY map00750 Vitamin B6 metabolism + map01240 Biosynthesis of cofactors + map01100 Metabolic pathways +REACTION R10089 C00117 + C00118 + C00064 -> C00018 +COMPOUND C00117 D-Ribose 5-phosphate + C00118 D-Glyceraldehyde 3-phosphate + C00064 L-Glutamine + C00018 Pyridoxal phosphate +REFERENCE PMID:17822383 + AUTHORS Fitzpatrick TB, Amrhein N, Kappes B, Macheroux P, Tews I, Raschle T + TITLE Two independent routes of de novo vitamin B6 biosynthesis: not that different after all. + JOURNAL Biochem J 407:1-13 (2007) + DOI:10.1042/BJ20070765 +REFERENCE PMID:16030023 + AUTHORS Raschle T, Amrhein N, Fitzpatrick TB + TITLE On the two components of pyridoxal 5'-phosphate synthase from Bacillus subtilis. + JOURNAL J Biol Chem 280:32291-300 (2005) + DOI:10.1074/jbc.M501356200 +REFERENCE PMID:16157873 + AUTHORS Tambasco-Studart M, Titiz O, Raschle T, Forster G, Amrhein N, Fitzpatrick TB. + TITLE Vitamin B6 biosynthesis in higher plants. + JOURNAL Proc Natl Acad Sci U S A 102:13687-92 (2005) + DOI:10.1073/pnas.0506228102 +/// diff --git a/KEGG_MODULES/M00917_Phytosterol_biosynthesis_squalene_2.txt b/KEGG_MODULES/M00917_Phytosterol_biosynthesis_squalene_2.txt new file mode 100644 index 0000000..e2ca458 --- /dev/null +++ b/KEGG_MODULES/M00917_Phytosterol_biosynthesis_squalene_2.txt @@ -0,0 +1,72 @@ +ENTRY M00917 Pathway Module +NAME Phytosterol biosynthesis, squalene 2,3-epoxide => campesterol/sitosterol +DEFINITION K01853 K00559 K14423 K23558 -- K08246 K05917 K00222 K01824 K08242 + K14424 K00227 K00213 K09828 +ORTHOLOGY K01853 cycloartenol synthase [EC:5.4.99.8] [RN:R03200] + K00559 sterol 24-C-methyltransferase [EC:2.1.1.41] [RN:R07481] + K14423 plant 4,4-dimethylsterol C-4alpha-methyl-monooxygenase [EC:1.14.18.10] [RN:R12377] + K23558 plant 3beta-hydroxysteroid-4alpha-carboxylate 3-dehydrogenase [EC:1.1.1.418] [RN:R12371 R12375 R12376] + K08246 cycloeucalenol cycloisomerase [EC:5.5.1.9] [RN:R03775] + K05917 sterol 14alpha-demethylase [EC:1.14.14.154] [RN:R05731] + K00222 Delta14-sterol reductase [EC:1.3.1.70] [RN:R07483] + K01824 cholestenol Delta-isomerase [EC:5.3.3.5] [RN:R07484] + K08242 24-methylenesterol C-methyltransferase [EC:2.1.1.143] [RN:R05776] + K14424 plant 4alpha-monomethylsterol monooxygenase [EC:1.14.18.11] [RN:R12378 R12379] + K00227 Delta7-sterol 5-desaturase [EC:1.14.19.20] [RN:R07491 R07486] + K00213 7-dehydrocholesterol reductase [EC:1.3.1.21] [RN:R07492 R07487] + K09828 Delta24-sterol reductase [EC:1.3.1.72 1.3.1.-] [RN:R07493 R07488] +CLASS Pathway modules; Lipid metabolism; Sterol biosynthesis +PATHWAY map00100 Steroid biosynthesis + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R03200 C01054 -> C01902 + R07481 C01902 -> C08830 + R12377 C08830 -> C22116 + R12371 C22116 -> C22121 + R12399 C22121 -> C02141 + R03775 C02141 -> C01943 + R05731 C01943 -> C11508 + R07483 C11508 -> C15776 + R07484 C15776 -> C11522 + R05776 C11522 -> C11523 + R12379 C11523 -> C22120 + R12376 C22120 -> C22123 + R12401 C22123 -> C15782 + R07486 C15782 -> C15783 + R07487 C15783 -> C08821 + R07488 C08821 -> C01753 + R12378 C11522 -> C22119 + R12375 C22119 -> C22122 + R12400 C22122 -> C15777 + R07491 C15777 -> C15780 + R07492 C15780 -> C15781 + R07493 C15781 -> C01789 +COMPOUND C01054 (S)-2,3-Epoxysqualene + C01902 Cycloartenol + C08830 24-Methylidenecycloartanol + C22116 3beta-Hydroxy-4beta,14alpha-dimethyl-9beta,19-cyclo-5alpha-ergost-24(24(1))-en-4alpha-carboxylate + C22121 Cycloeucalenone + C02141 Cycloeucalenol + C01943 Obtusifoliol + C11508 4alpha-Methyl-5alpha-ergosta-8,14,24(28)-trien-3beta-ol + C15776 4alpha-Methylfecosterol + C11522 24-Methylenelophenol + C11523 24-Ethylidenelophenol + C22120 4alpha-Carboxy-stigmasta-7,24(24(1))-dien-3beta-ol + C22123 Avenastenone + C15782 Delta7-Avenasterol + C15783 5-Dehydroavenasterol + C08821 Isofucosterol + C01753 beta-Sitosterol + C22119 3beta-Hydroxyergosta-7,24(24(1))-dien-4alpha-carboxylate + C22122 Episterone + C15777 Episterol + C15780 5-Dehydroepisterol + C15781 24-Methylenecholesterol + C01789 Campesterol +REFERENCE PMID:28005066 + AUTHORS Sonawane PD, Pollier J, Panda S, Szymanski J, Massalha H, Yona M, Unger T, Malitsky S, Arendt P, Pauwels L, Almekias-Siegl E, Rogachev I, Meir S, Cardenas PD, Masri A, Petrikov M, Schaller H, Schaffer AA, Kamble A, Giri AP, Goossens A, Aharoni A + TITLE Plant cholesterol biosynthetic pathway overlaps with phytosterol metabolism. + JOURNAL Nat Plants 3:16205 (2016) + DOI:10.1038/nplants.2016.205 +/// diff --git a/KEGG_MODULES/M00918_Aerobactin_biosynthesis.txt b/KEGG_MODULES/M00918_Aerobactin_biosynthesis.txt new file mode 100644 index 0000000..10c2600 --- /dev/null +++ b/KEGG_MODULES/M00918_Aerobactin_biosynthesis.txt @@ -0,0 +1,26 @@ +ENTRY M00918 Pathway Module +NAME Aerobactin biosynthesis, lysine => aerobactin +DEFINITION K03897 K03896 K03894 K03895 +ORTHOLOGY K03897 iucD; lysine N6-hydroxylase [EC:1.14.13.59] [RN:R00448] + K03896 iucB; acetyl CoA:N6-hydroxylysine acetyl transferase [EC:2.3.1.102] [RN:R03168] + K03894 iucA; N2-citryl-N6-acetyl-N6-hydroxylysine synthase [EC:6.3.2.38] [RN:R10090] + K03895 iucC; aerobactin synthase [EC:6.3.2.39] [RN:R10091] +CLASS Pathway modules; Biosynthesis of other secondary metabolites; Biosynthesis of other bacterial compounds +PATHWAY map00997 Biosynthesis of various other secondary metabolites + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R00448 C00047 -> C01028 + R03168 C01028 -> C03955 + R10090 C03955 -> C20333 + R10091 C20333 -> C05554 +COMPOUND C00047 L-Lysine + C01028 N6-Hydroxy-L-lysine + C03955 N6-Acetyl-N6-hydroxy-L-lysine + C20333 N2-Citryl-N6-acetyl-N6-hydroxy-L-lysine + C05554 Aerobactin +REFERENCE PMID:1393837 + AUTHORS Neilands JB + TITLE Mechanism and regulation of synthesis of aerobactin in Escherichia coli K12 (pColV-K30). + JOURNAL Can J Microbiol 38:728-33 (1992) + DOI:10.1139/m92-119 +/// diff --git a/KEGG_MODULES/M00919_Ectoine_degradation.txt b/KEGG_MODULES/M00919_Ectoine_degradation.txt new file mode 100644 index 0000000..bebc645 --- /dev/null +++ b/KEGG_MODULES/M00919_Ectoine_degradation.txt @@ -0,0 +1,26 @@ +ENTRY M00919 Pathway Module +NAME Ectoine degradation, ectoine => aspartate +DEFINITION K15783 K15784 K15785 K15786 +ORTHOLOGY K15783 doeA; ectoine hydrolase [EC:3.5.4.44] [RN:R09800] + K15784 doeB; N2-acetyl-L-2,4-diaminobutanoate deacetylase [EC:3.5.1.125] [RN:R09801] + K15785 doeD; L-2,4-diaminobutyrate transaminase [EC:2.6.1.76] [RN:R06977] + K15786 doeC; aspartate-semialdehyde dehydrogenase [EC:1.2.1.-] [RN:R09805] +CLASS Pathway modules; Amino acid metabolism; Serine and threonine metabolism +PATHWAY map00260 Glycine, serine and threonine metabolism + map01100 Metabolic pathways + map01120 Microbial metabolism in diverse environments +REACTION R09800 C06231 -> C19929 + R09801 C19929 -> C03283 + R06977 C03283 -> C00441 + R09805 C00441 -> C00049 +COMPOUND C06231 Ectoine + C19929 N(alpha)-Acetyl-L-2,4-diaminobutyrate + C03283 L-2,4-Diaminobutanoate + C00441 L-Aspartate 4-semialdehyde + C00049 L-Aspartate +REFERENCE PMID:20849449 + AUTHORS Schwibbert K, Marin-Sanguino A, Bagyan I, Heidrich G, Lentzen G, Seitz H, Rampp M, Schuster SC, Klenk HP, Pfeiffer F, Oesterhelt D, Kunte HJ + TITLE A blueprint of ectoine metabolism from the genome of the industrial producer Halomonas elongata DSM 2581 T. + JOURNAL Environ Microbiol 13:1973-94 (2011) + DOI:10.1111/j.1462-2920.2010.02336.x +/// diff --git a/KEGG_MODULES/M00921_Cyclooctatin_biosynthesis.txt b/KEGG_MODULES/M00921_Cyclooctatin_biosynthesis.txt new file mode 100644 index 0000000..a505126 --- /dev/null +++ b/KEGG_MODULES/M00921_Cyclooctatin_biosynthesis.txt @@ -0,0 +1,32 @@ +ENTRY M00921 Pathway Module +NAME Cyclooctatin biosynthesis, dimethylallyl-PP + isopentenyl-PP => cyclooctatin +DEFINITION K13787 K18686 K22997 K22998 +ORTHOLOGY K13787 cotB1; geranylgeranyl diphosphate synthase [EC:2.5.1.1 2.5.1.10 2.5.1.29] [RN:R01658 R02003 R02061] + K18686 cotB2; cyclooctat-9-en-7-ol synthase [EC:4.2.3.146] [RN:R10763] + K22997 cotB3; cyclooctat-9-en-7-ol 5-monooxygenase [EC:1.14.99.61] [RN:R12177] + K22998 cotB4; cyclooctatin synthase [EC:1.14.99.62] [RN:R12178] +CLASS Pathway modules; Biosynthesis of other secondary metabolites; Biosynthesis of other bacterial compounds +PATHWAY map00900 Terpenoid backbone biosynthesis + map00997 Biosynthesis of various other secondary metabolites + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R01658 C00235 + C00129 -> C00341 + R02003 C00341 + C00129 -> C00448 + R02061 C00448 + C00129 -> C00353 + R10763 C00353 -> C20834 + R12177 C20834 -> C21978 + R12178 C21978 -> C21979 +COMPOUND C00235 Dimethylallyl diphosphate + C00129 Isopentenyl diphosphate + C00341 Geranyl diphosphate + C00448 trans,trans-Farnesyl diphosphate + C00353 Geranylgeranyl diphosphate + C20834 Cyclooctat-9-en-7-ol + C21978 Cyclooctat-9-ene-5,7-diol + C21979 Cyclooctatin +REFERENCE PMID:19635410 + AUTHORS Kim SY, Zhao P, Igarashi M, Sawa R, Tomita T, Nishiyama M, Kuzuyama T + TITLE Cloning and heterologous expression of the cyclooctatin biosynthetic gene cluster afford a diterpene cyclase and two p450 hydroxylases. + JOURNAL Chem Biol 16:736-43 (2009) + DOI:10.1016/j.chembiol.2009.06.007 +/// diff --git a/KEGG_MODULES/M00922_CMP-Neu5Ac_biosynthesis.txt b/KEGG_MODULES/M00922_CMP-Neu5Ac_biosynthesis.txt new file mode 100644 index 0000000..e03be42 --- /dev/null +++ b/KEGG_MODULES/M00922_CMP-Neu5Ac_biosynthesis.txt @@ -0,0 +1,23 @@ +ENTRY M00922 Pathway Module +NAME CMP-Neu5Ac biosynthesis +DEFINITION K24257 K01654 K00983 +ORTHOLOGY K24257 UDP-N-acetylglucosamine 2-epimerase (hydrolysing) [EC:3.2.1.183] [RN:R00414] + K01654 N-acetylneuraminate synthase [EC:2.5.1.56] [RN:R01804] + K00983 N-acylneuraminate cytidylyltransferase [EC:2.7.7.43] [RN:R01117] +CLASS Pathway modules; Glycan metabolism; Lipopolysaccharide metabolism +PATHWAY map00541 O-Antigen nucleotide sugar biosynthesis + map01250 Biosynthesis of nucleotide sugars + map01100 Metabolic pathways +REACTION R00414 C00043 -> C00645 + R01804 C00645 -> C00270 + R01117 C00270 -> C00128 +COMPOUND C00043 UDP-N-acetyl-alpha-D-glucosamine + C00645 N-Acetyl-D-mannosamine + C00270 N-Acetylneuraminate + C00128 CMP-N-acetylneuraminate +REFERENCE PMID:15629947 + AUTHORS Feng L, Senchenkova SN, Tao J, Shashkov AS, Liu B, Shevelev SD, Reeves PR, Xu J, Knirel YA, Wang L + TITLE Structural and genetic characterization of enterohemorrhagic Escherichia coli O145 O antigen and development of an O145 serogroup-specific PCR assay. + JOURNAL J Bacteriol 187:758-64 (2005) + DOI:10.1128/JB.187.2.758-764.2005 +/// diff --git a/KEGG_MODULES/M00923_UDP-L-FucNAm_biosynthesis.txt b/KEGG_MODULES/M00923_UDP-L-FucNAm_biosynthesis.txt new file mode 100644 index 0000000..23cff15 --- /dev/null +++ b/KEGG_MODULES/M00923_UDP-L-FucNAm_biosynthesis.txt @@ -0,0 +1,29 @@ +ENTRY M00923 Pathway Module +NAME UDP-L-FucNAm biosynthesis +DEFINITION K15894 K19068 K24258 K24259 +ORTHOLOGY K15894 UDP-N-acetylglucosamine 4,6-dehydratase [EC:4.2.1.115] [RN:R09697] + K19068 UDP-2-acetamido-2,6-beta-L-arabino-hexul-4-ose reductase [EC:1.1.1.367] [RN:R12553 R12552] + K24258 UDP-N-acetyl-L-fucosamine synthase [EC:5.1.3.28] [RN:R10676] + K24259 putative aminotransferase [RN:R12584] +CLASS Pathway modules; Glycan metabolism; Lipopolysaccharide metabolism +PATHWAY map00541 O-Antigen nucleotide sugar biosynthesis + map01250 Biosynthesis of nucleotide sugars + map01100 Metabolic pathways +REACTION R09697 C00043 -> C19823 + R12553 C19823 -> C20769 + R12552 C20769 -> C20768 + R10676 C20768 -> C20774 + R12584 C20774 -> C22270 +COMPOUND C00043 UDP-N-acetyl-alpha-D-glucosamine + C19823 UDP-2-acetamido-2,6-dideoxy-beta-L-arabino-hexos-4-ulose + C20769 UDP-2-acetamido-2,6-dideoxy-beta-L-lyxo-4-hexulose + C20768 UDP-2-acetamido-2,6-dideoxy-beta-L-talose + C20774 UDP-N-acetyl-beta-L-fucosamine + C22270 UDP-2,6-dideoxy-2-acetamidino-beta-L-galactose +RMODULE RM036 Epimerization and reduction in deoxysugar biosynthesis +REFERENCE PMID:15629947 + AUTHORS Feng L, Senchenkova SN, Tao J, Shashkov AS, Liu B, Shevelev SD, Reeves PR, Xu J, Knirel YA, Wang L + TITLE Structural and genetic characterization of enterohemorrhagic Escherichia coli O145 O antigen and development of an O145 serogroup-specific PCR assay. + JOURNAL J Bacteriol 187:758-64 (2005) + DOI:10.1128/JB.187.2.758-764.2005 +/// diff --git a/KEGG_MODULES/M00924_Cobalamin_biosynthesis_anaerobicc-diamide.txt b/KEGG_MODULES/M00924_Cobalamin_biosynthesis_anaerobicc-diamide.txt new file mode 100644 index 0000000..faf6c6d --- /dev/null +++ b/KEGG_MODULES/M00924_Cobalamin_biosynthesis_anaerobicc-diamide.txt @@ -0,0 +1,65 @@ +ENTRY M00924 Pathway Module +NAME Cobalamin biosynthesis, anaerobic, uroporphyrinogen III => sirohydrochlorin => cobyrinate a,c-diamide +DEFINITION (K02302,(K02303,K13542) (K02304,K24866)) (K02190,K03795,K22011) K03394 (K05934,K13541,K21479) K05936 (K02189,K13541) K02188 K05895 (K02191 K03399,K00595) K06042 K02224 +ORTHOLOGY K02302 cysG; uroporphyrin-III C-methyltransferase / precorrin-2 dehydrogenase [EC:2.1.1.107 1.3.1.76] [RN:R03194 R03947] + K02303,K13542 cobA; uroporphyrin-III C-methyltransferase [EC:2.1.1.107] [RN:R03194] + K02304,K24866 MET8, sirC; precorrin-2 dehydrogenase [EC:1.3.1.76] [RN:R03947] + K02190,K03795,K22011 cbiK, cbiX, cfbA; sirohydrochlorin cobaltochelatase [EC:4.99.1.3] [RN:R05807] + K03394 cbiL; cobalt-factor-2 C20-methyltransferase [EC:2.1.1.151] [RN:R05808] + K05934,K13541,K21479 cbiH; cobalt-factor III methyltransferase [EC:2.1.1.272] [RN:R11580] + K05936 cbiF; cobalt-precorrin-4 C11-methyltransferase [EC:2.1.1.271] [RN:R05810] + K02189,K13541 cbiG; cobalt-precorrin 5A hydrolase [EC:3.7.1.12] [RN:R07772] + K02188 cbiD; cobalt-precorrin-5B (C1)-methyltransferase [EC:2.1.1.195] [RN:R07773] + K05895 cbiJ; cobalt-precorrin-6A reductase [EC:1.3.1.106] [RN:R05812] + K02191 cbiT; cobalt-precorrin-6B (C15)-methyltransferase [EC:2.1.1.196] [RN:R07774] + K03399 cbiE; cobalt-precorrin-7 (C5)-methyltransferase [EC:2.1.1.289] [RN:R07775] + K00595 cbiET; cobalt-precorrin-6B C5,C15-methyltransferase [EC:2.1.1.289 2.1.1.196] [RN:R07775 R07774] + K06042 cbiC; cobalt-precorrin-8 methylmutase [EC:5.4.99.60] [RN:R05814] + K02224 cbiA; cobyrinic acid a,c-diamide synthase [EC:6.3.5.11] [RN:R05815] +CLASS Pathway modules; Metabolism of cofactors and vitamins; Cofactor and vitamin metabolism +PATHWAY map00860 Porphyrin metabolism + map01240 Biosynthesis of cofactors + map01100 Metabolic pathways +REACTION R03194 C01051 -> C02463 + R03947 C02463 -> C05778 + R05807 C05778 -> C11538 + R05808 C11538 -> C17401 + R11580 C17401 -> C11540 + R05810 C11540 -> C16242 + R07772 C16242 -> C16243 + R07773 C16243 -> C11542 + R05812 C11542 -> C11543 + R07774 C11543 -> C16244 + R07775 C16244 -> C11545 + R05814 C11545 -> C05773 + R05815 C05773 -> C06504 +COMPOUND C01051 Uroporphyrinogen III + C02463 Precorrin 2 + C05778 Sirohydrochlorin + C11538 Cobalt-sirohydrochlorin + C17401 Cobalt-factor III + C11540 Cobalt-precorrin 4 + C16242 Cobalt-precorrin 5A + C16243 Cobalt-precorrin 5B + C11542 Cobalt-precorrin 6 + C11543 Cobalt-dihydro-precorrin 6 + C16244 Cobalt-precorrin 7 + C11545 Cobalt-precorrin 8 + C05773 Cobyrinate + C06504 Cob(II)yrinate a,c diamide +REFERENCE PMID:22616870 + AUTHORS Moore SJ, Warren MJ + TITLE The anaerobic biosynthesis of vitamin B12. + JOURNAL Biochem Soc Trans 40:581-6 (2012) + DOI:10.1042/BST20120066 +REFERENCE PMID:16042604 + AUTHORS Frank S, Brindley AA, Deery E, Heathcote P, Lawrence AD, Leech HK, Pickersgill RW, Warren MJ + TITLE Anaerobic synthesis of vitamin B12: characterization of the early steps in the pathway. + JOURNAL Biochem Soc Trans 33:811-4 (2005) + DOI:10.1042/BST0330811 +REFERENCE PMID:32241908 + AUTHORS Bryant DA, Hunter CN, Warren MJ + TITLE Biosynthesis of the modified tetrapyrroles-the pigments of life. + JOURNAL J Biol Chem 295:6888-6925 (2020) + DOI:10.1074/jbc.REV120.006194 +/// diff --git a/KEGG_MODULES/M00925_Cobalamin_biosynthesis_aerobicc-diamide.txt b/KEGG_MODULES/M00925_Cobalamin_biosynthesis_aerobicc-diamide.txt new file mode 100644 index 0000000..5ff0283 --- /dev/null +++ b/KEGG_MODULES/M00925_Cobalamin_biosynthesis_aerobicc-diamide.txt @@ -0,0 +1,58 @@ +ENTRY M00925 Pathway Module +NAME Cobalamin biosynthesis, aerobic, uroporphyrinogen III => precorrin 2 => cobyrinate a,c-diamide +DEFINITION (K02303,K13542) (K03394,K13540) K02229 (K05934,K13540,K13541) K05936 K02228 K05895 K00595 K06042 K02224 (K02230+K09882+K09883) +ORTHOLOGY K02303,K13542 cobA; uroporphyrin-III C-methyltransferase [EC:2.1.1.107] [RN:R03194] + K03394 cobI; precorrin-2 C20-methyltransferase [EC:2.1.1.130] [RN:R03948] + K13540 cobIJ; precorrin-2 C20-methyltransferase / precorrin-3B C17-methyltransferase [EC:2.1.1.130 2.1.1.131] [RN:R03948 R05180] + K02229 cobG; precorrin-3B synthase [EC:1.14.13.83] [RN:R05217] + K05934,K13541 cobJ; precorrin-3B C17-methyltransferase [EC:2.1.1.131] [RN:R05180] + K05936 cobM; precorrin-4 C11-methyltransferase [EC:2.1.1.133] [RN:R05181] + K02228 cobF; precorrin-6A synthase [EC:2.1.1.152] [RN:R05219] + K05895 cobK; precorrin-6A reductase [EC:1.3.1.54] [RN:R05150] + K00595 cobL; precorrin-6B C5,15-methyltransferase [EC:2.1.1.132] [RN:R05149] + K06042 cobH; precorrin-8X methylmutase [EC:5.4.99.61] [RN:R05177] + K02224 cobB; cobyrinic acid a,c-diamide synthase [EC:6.3.5.9] [RN:R05224] + K02230+K09882+K09883 cobNST; cobaltochelatase CobNST [EC:6.6.1.2] [RN:R05227] +CLASS Pathway modules; Metabolism of cofactors and vitamins; Cofactor and vitamin metabolism +PATHWAY map00860 Porphyrin metabolism + map01240 Biosynthesis of cofactors + map01100 Metabolic pathways +REACTION R03194 C01051 -> C02463 + R03948 C02463 -> C05772 + R05217 C05772 -> C06406 + R05180 C06406 -> C06407 + R05181 C06407 -> C06416 + R05219 C06416 -> C06320 + R05150 C06320 -> C06319 + R05149 C06319 -> C06408 + R05177 C06408 -> C06399 + R05224 C06399 -> C06503 + R05227 C06503 -> C06504 +COMPOUND C01051 Uroporphyrinogen III + C02463 Precorrin 2 + C05772 Precorrin 3A + C06406 Precorrin 3B + C06407 Precorrin 4 + C06416 Precorrin 5 + C06320 Precorrin 6X + C06319 Precorrin 6Y + C06408 Precorrin 8X + C06399 Hydrogenobyrinate + C06503 Hydrogenobyrinate a,c diamide + C06504 Cob(II)yrinate a,c diamide +REFERENCE PMID:23042036 + AUTHORS Deery E, Schroeder S, Lawrence AD, Taylor SL, Seyedarabi A, Waterman J, Wilson KS, Brown D, Geeves MA, Howard MJ, Pickersgill RW, Warren MJ + TITLE An enzyme-trap approach allows isolation of intermediates in cobalamin biosynthesis. + JOURNAL Nat Chem Biol 8:933-40 (2012) + DOI:10.1038/nchembio.1086 +REFERENCE PMID:12195810 + AUTHORS Warren MJ, Raux E, Schubert HL, Escalante-Semerena JC. + TITLE The biosynthesis of adenosylcobalamin (vitamin B12). + JOURNAL Nat Prod Rep 19:390-412 (2002) + DOI:10.1039/b108967f +REFERENCE PMID:32241908 + AUTHORS Bryant DA, Hunter CN, Warren MJ + TITLE Biosynthesis of the modified tetrapyrroles-the pigments of life. + JOURNAL J Biol Chem 295:6888-6925 (2020) + DOI:10.1074/jbc.REV120.006194 +/// diff --git a/KEGG_MODULES/M00926_Heme_biosynthesis_bacteria.txt b/KEGG_MODULES/M00926_Heme_biosynthesis_bacteria.txt new file mode 100644 index 0000000..fdb8555 --- /dev/null +++ b/KEGG_MODULES/M00926_Heme_biosynthesis_bacteria.txt @@ -0,0 +1,46 @@ +ENTRY M00926 Pathway Module +NAME Heme biosynthesis, bacteria, glutamyl-tRNA => coproporphyrin III => heme +DEFINITION K02492 K01845 K01698 K01749 (K01719,K13542) K01599 K00231 K01772 K00435 +ORTHOLOGY K02492 hemA; glutamyl-tRNA reductase [EC:1.2.1.70] [RN:R04109] + K01845 hemL; glutamate-1-semialdehyde 2,1-aminomutase [EC:5.4.3.8] [RN:R02272] + K01698 hemB; porphobilinogen synthase [EC:4.2.1.24] [RN:R00036] + K01749 hemC; hydroxymethylbilane synthase [EC:2.5.1.61] [RN:R00084] + K01719,K13542 hemD; uroporphyrinogen-III synthase [EC:4.2.1.75] [RN:R03165] + K01599 hemE; uroporphyrinogen decarboxylase [EC:4.1.1.37] [RN:R03197] + K00231 hemY; coproporphyrinogen III oxidase [EC:1.3.3.15] [RN:R04178] + K01772 hemH; coproporphyrin ferrochelatase [EC:4.99.1.9] [RN:R11329] + K00435 hemQ; hydrogen peroxide-dependent heme synthase [EC:1.3.98.5] [RN:R11522] +CLASS Pathway modules; Metabolism of cofactors and vitamins; Cofactor and vitamin metabolism +PATHWAY map00860 Porphyrin metabolism + map01240 Biosynthesis of cofactors + map01100 Metabolic pathways +REACTION R04109 C02987 -> C03741 + R02272 C03741 -> C00430 + R00036 C00430 -> C00931 + R00084 C00931 -> C01024 + R03165 C01024 -> C01051 + R03197 C01051 -> C03263 + R04178 C03263 -> C05770 + R11329 C05770 -> C21284 + R11522 C21284 -> C00032 +COMPOUND C02987 L-Glutamyl-tRNA(Glu) + C03741 (S)-4-Amino-5-oxopentanoate + C00430 5-Aminolevulinate + C00931 Porphobilinogen + C01024 Hydroxymethylbilane + C01051 Uroporphyrinogen III + C03263 Coproporphyrinogen III + C05770 Coproporphyrin III + C21284 Fe-coproporphyrin III + C00032 Heme +REFERENCE PMID:25646457 + AUTHORS Dailey HA, Gerdes S, Dailey TA, Burch JS, Phillips JD + TITLE Noncanonical coproporphyrin-dependent bacterial heme biosynthesis pathway that does not use protoporphyrin. + JOURNAL Proc Natl Acad Sci U S A 112:2210-5 (2015) + DOI:10.1073/pnas.1416285112 +REFERENCE PMID:28123057 + AUTHORS Dailey HA, Dailey TA, Gerdes S, Jahn D, Jahn M, O'Brian MR, Warren MJ + TITLE Prokaryotic Heme Biosynthesis: Multiple Pathways to a Common Essential Product. + JOURNAL Microbiol Mol Biol Rev 81:e00048-16 (2017) + DOI:10.1128/MMBR.00048-16 +/// diff --git a/KEGG_MODULES/M00927_Gibberellin_A12_biosynthesis.txt b/KEGG_MODULES/M00927_Gibberellin_A12_biosynthesis.txt new file mode 100644 index 0000000..a741fe7 --- /dev/null +++ b/KEGG_MODULES/M00927_Gibberellin_A12_biosynthesis.txt @@ -0,0 +1,39 @@ +ENTRY M00927 Pathway Module +NAME Gibberellin A12 biosynthesis, GAPP => GA12 +DEFINITION K04120 K04121 K04122 K04123 +ORTHOLOGY K04120 ent-copalyl diphosphate synthase [EC:5.5.1.13] [RN:R02068] + K04121 ent-kaurene synthase [EC:4.2.3.19] [RN:R05092] + K04122 ent-kaurene oxidase [EC:1.14.14.86][RN:R06291 R06292 R06293] + K04123 ent-kaurenoic acid monooxygenase [EC:1.14.14.107] [RN:R06294 R06295 R06297] +CLASS Pathway modules; Biosynthesis of terpenoids and polyketides; Plant terpenoid biosynthesis +PATHWAY map00904 Diterpenoid biosynthesis + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R02068 C00353 -> C06089 + R05092 C06089 -> C06090 + R06291 C06090 -> C11872 + R06292 C11872 -> C11873 + R06293 C11873 -> C11874 + R06294 C11874 -> C11875 + R06295 C11875 -> C06093 + R06297 C06093 -> C11857 +COMPOUND C00353 Geranylgeranyl diphosphate + C06089 ent-Copalyl diphosphate + C06090 ent-Kaurene + C11872 Kaur-16-en-18-ol + C11873 Kaur-16-en-18-al + C11874 Kaur-16-en-18-oic acid + C11875 ent-7alpha-Hydroxykaur-16-en-19-oic acid + C06093 Gibberellin A12 aldehyde + C11857 Gibberellin A12 +REFERENCE PMID:12805613 + AUTHORS Fleet CM, Yamaguchi S, Hanada A, Kawaide H, David CJ, Kamiya Y, Sun TP + TITLE Overexpression of AtCPS and AtKS in Arabidopsis confers increased ent-kaurene production but no increase in bioactive gibberellins. + JOURNAL Plant Physiol 132:830-9 (2003) + DOI:10.1104/pp.103.021725 +REFERENCE PMID:23319637 + AUTHORS Magome H, Nomura T, Hanada A, Takeda-Kamiya N, Ohnishi T, Shinma Y, Katsumata T, Kawaide H, Kamiya Y, Yamaguchi S + TITLE CYP714B1 and CYP714B2 encode gibberellin 13-oxidases that reduce gibberellin activity in rice. + JOURNAL Proc Natl Acad Sci U S A 110:1947-52 (2013) + DOI:10.1073/pnas.1215788110 +/// diff --git a/KEGG_MODULES/M00928_Gibberellin_A4--A1_biosynthesis.txt b/KEGG_MODULES/M00928_Gibberellin_A4--A1_biosynthesis.txt new file mode 100644 index 0000000..3c3f2e9 --- /dev/null +++ b/KEGG_MODULES/M00928_Gibberellin_A4--A1_biosynthesis.txt @@ -0,0 +1,33 @@ +ENTRY M00928 Pathway Module +NAME Gibberellin A4/A1 biosynthesis, GA12/GA53 => GA4/GA1 +DEFINITION K05282 K04124 +ORTHOLOGY K05282 gibberellin-44 dioxygenase [EC:1.14.11.12] [RN:R06322 R06323 R06326 R05097 R03806 R03807] + K04124 gibberellin 3beta-dioxygenase [EC:1.14.11.15] [RN:R06336 R03009] +CLASS Pathway modules; Biosynthesis of terpenoids and polyketides; Plant terpenoid biosynthesis +PATHWAY map00904 Diterpenoid biosynthesis + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R06322 C11857 -> C11860 + R06323 C11860 -> C11861 + R06326 C11861 -> C11863 + R06336 C11863 -> C11864 + R05097 C06094 -> C06095 + R03806 C06095 -> C02034 + R03807 C02034 -> C02035 + R03009 C02035 -> C00859 +COMPOUND C11857 Gibberellin A12 + C11860 Gibberellin A15 open lactone + C11861 Gibberellin A24 + C11863 Gibberellin A9 + C11864 Gibberellin A4 + C06094 Gibberellin A53 + C06095 Gibberellin A44 diacid + C02034 Gibberellin A19 + C02035 Gibberellin A20 + C00859 Gibberellin A1 +REFERENCE PMID:23319637 + AUTHORS Magome H, Nomura T, Hanada A, Takeda-Kamiya N, Ohnishi T, Shinma Y, Katsumata T, Kawaide H, Kamiya Y, Yamaguchi S + TITLE CYP714B1 and CYP714B2 encode gibberellin 13-oxidases that reduce gibberellin activity in rice. + JOURNAL Proc Natl Acad Sci U S A 110:1947-52 (2013) + DOI:10.1073/pnas.1215788110 +/// diff --git a/KEGG_MODULES/M00929_Gibberellin_A1_biosynthesis.txt b/KEGG_MODULES/M00929_Gibberellin_A1_biosynthesis.txt new file mode 100644 index 0000000..c4d98e2 --- /dev/null +++ b/KEGG_MODULES/M00929_Gibberellin_A1_biosynthesis.txt @@ -0,0 +1,50 @@ +ENTRY M00929 Pathway Module +NAME Gibberellin A1 biosynthesis, GGPP => GA1 +DEFINITION K20657 K21292 K12917 K12918 K12919 +ORTHOLOGY K20657 ent-copalyl diphosphate/ent-kaurene synthase [EC:5.5.1.13 4.2.3.19] [RN:R02068 R05092] + K21292 ent-kaurene oxidase [EC:1.14.14.86] [RN:R06291 R06292 R06293] + K12917 P450I; cytochrome P450 monooxygenase 1 [RN:R06294 R06295 R06341 R06339] + K12918 P450II; cytochrome P450 monooxygenase 2 [RN:R06324 R06325 R06327] + K12919 P450III; cytochrome P450 monooxygenase 3 [RN:R06619] +CLASS Pathway modules; Biosynthesis of terpenoids and polyketides; Plant terpenoid biosynthesis +PATHWAY map00904 Diterpenoid biosynthesis + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R02068 C00353 -> C06089 + R05092 C06089 -> C06090 + R06291 C06090 -> C11872 + R06292 C11872 -> C11873 + R06293 C11873 -> C11874 + R06294 C11874 -> C11875 + R06295 C11875 -> C06093 + R06341 C06093 -> C11853 + R06339 C11853 -> C11858 + R06324 C11858 -> C11859 + R06325 C11859 -> C11862 + R06327 C11862 -> C11864 + R06619 C11864 -> C00859 +COMPOUND C00353 Geranylgeranyl diphosphate + C06089 ent-Copalyl diphosphate + C06090 ent-Kaurene + C11872 Kaur-16-en-18-ol + C11873 Kaur-16-en-18-al + C11874 Kaur-16-en-18-oic acid + C11875 ent-7alpha-Hydroxykaur-16-en-19-oic acid + C06093 Gibberellin A12 aldehyde + C11853 Gibberellin A14 aldehyde + C11858 Gibberellin A14 + C11859 Gibberellin A37 open lactone + C11862 Gibberellin A36 + C11864 Gibberellin A4 + C00859 Gibberellin A1 +REFERENCE PMID:11943776 + AUTHORS Tudzynski B, Rojas MC, Gaskin P, Hedden P + TITLE The gibberellin 20-oxidase of Gibberella fujikuroi is a multifunctional monooxygenase. + JOURNAL J Biol Chem 277:21246-53 (2002) + DOI:10.1074/jbc.M201651200 +REFERENCE PMID:12750377 + AUTHORS Tudzynski B, Mihlan M, Rojas MC, Linnemannstons P, Gaskin P, Hedden P + TITLE Characterization of the final two genes of the gibberellin biosynthesis gene cluster of Gibberella fujikuroi: des and P450-3 encode GA4 desaturase and the 13-hydroxylase, respectively. + JOURNAL J Biol Chem 278:28635-43 (2003) + DOI:10.1074/jbc.M301927200 +/// diff --git a/KEGG_MODULES/M00930_Menaquinone_biosynthesis_futalosine_pathway.txt b/KEGG_MODULES/M00930_Menaquinone_biosynthesis_futalosine_pathway.txt new file mode 100644 index 0000000..481b07c --- /dev/null +++ b/KEGG_MODULES/M00930_Menaquinone_biosynthesis_futalosine_pathway.txt @@ -0,0 +1,32 @@ +ENTRY M00930 Pathway Module +NAME Menaquinone biosynthesis, futalosine pathway +DEFINITION K11782 K18285 (K18286,K20810) K11783 K11784 K11785 +ORTHOLOGY K11782 mqnA; chorismate dehydratase [EC:4.2.1.151] [RN:R10666] + K18285 mqnE; aminodeoxyfutalosine synthase [EC:2.5.1.120] [RN:R10667] + K18286,K20810 mqnX; aminodeoxyfutalosine deaminase [EC:3.5.4.40] [RN:R10695] + K11783 mqnB; futalosine hydrolase [EC:3.2.2.26] [RN:R08587] + K11784 mqnC; cyclic dehypoxanthinyl futalosine synthase [EC:1.21.98.1] [RN:R08588] + K11785 mqnD; 1,4-dihydroxy-6-naphthoate synthase [EC:1.14.-.-] [RN:R08589] +CLASS Pathway modules; Metabolism of cofactors and vitamins; Cofactor and vitamin metabolism +PATHWAY map00130 Ubiquinone and other terpenoid-quinone biosynthesis + map01240 Biosynthesis of cofactors + map01100 Metabolic pathways +REACTION R10666 C00251 -> C20772 + R10667 C20772 -> C20773 + R10695 C20773 -> C16999 + R08587 C16999 -> C17010 + R08588 C17010 -> C17017 + R08589 C17017 -> C17018 +COMPOUND C00251 Chorismate + C20772 3-[(1-Carboxyvinyl)oxy]benzoate + C20773 6-Amino-6-deoxyfutalosine + C16999 Futalosine + C17010 Dehypoxanthine futalosine + C17017 Cyclic dehypoxanthine futalosine + C17018 1,4-Dihydroxy-6-naphthoate +REFERENCE PMID:30447488 + AUTHORS Joshi S, Fedoseyenko D, Mahanta N, Manion H, Naseem S, Dairi T, Begley TP + TITLE Novel enzymology in futalosine-dependent menaquinone biosynthesis. + JOURNAL Curr Opin Chem Biol 47:134-141 (2018) + DOI:10.1016/j.cbpa.2018.09.015 +/// diff --git a/KEGG_MODULES/M00931_Menaquinone_biosynthesis_modified_futalosine_pathway.txt b/KEGG_MODULES/M00931_Menaquinone_biosynthesis_modified_futalosine_pathway.txt new file mode 100644 index 0000000..fc76aac --- /dev/null +++ b/KEGG_MODULES/M00931_Menaquinone_biosynthesis_modified_futalosine_pathway.txt @@ -0,0 +1,34 @@ +ENTRY M00931 Pathway Module +NAME Menaquinone biosynthesis, modified futalosine pathway +DEFINITION K11782 K18285 K18284 K11784 K11785 +ORTHOLOGY K11782 mqnA; chorismate dehydratase [EC:4.2.1.151] [RN:R10666] + K18285 mqnE; aminodeoxyfutalosine synthase [EC:2.5.1.120] [RN:R10667] + K18284 K18284; aminodeoxyfutalosine nucleosidase [EC:3.2.2.30] [RN:R10668] + K11784 mqnC; cyclic dehypoxanthinyl futalosine synthase [EC:1.21.98.1] [RN:R08588] + K11785 mqnD; 1,4-dihydroxy-6-naphthoate synthase [EC:1.14.-.-] [RN:R08589] +CLASS Pathway modules; Metabolism of cofactors and vitamins; Cofactor and vitamin metabolism +PATHWAY map00130 Ubiquinone and other terpenoid-quinone biosynthesis + map01240 Biosynthesis of cofactors + map01100 Metabolic pathways +REACTION R10666 C00251 -> C20772 + R10667 C20772 -> C20773 + R10668 C20773 -> C17010 + R08588 C17010 -> C17017 + R08589 C17017 -> C17018 +COMPOUND C00251 Chorismate + C20772 3-[(1-Carboxyvinyl)oxy]benzoate + C20773 6-Amino-6-deoxyfutalosine + C17010 Dehypoxanthine futalosine + C17017 Cyclic dehypoxanthine futalosine + C17018 1,4-Dihydroxy-6-naphthoate +REFERENCE PMID:30447488 + AUTHORS Joshi S, Fedoseyenko D, Mahanta N, Manion H, Naseem S, Dairi T, Begley TP + TITLE Novel enzymology in futalosine-dependent menaquinone biosynthesis. + JOURNAL Curr Opin Chem Biol 47:134-141 (2018) + DOI:10.1016/j.cbpa.2018.09.015 +REFERENCE PMID:21489995 + AUTHORS Li X, Apel D, Gaynor EC, Tanner ME + TITLE 5'-methylthioadenosine nucleosidase is implicated in playing a key role in a modified futalosine pathway for menaquinone biosynthesis in Campylobacter jejuni. + JOURNAL J Biol Chem 286:19392-8 (2011) + DOI:10.1074/jbc.M111.229781 +/// diff --git a/KEGG_MODULES/M00932_Phylloquinone_biosynthesis.txt b/KEGG_MODULES/M00932_Phylloquinone_biosynthesis.txt new file mode 100644 index 0000000..ae36d25 --- /dev/null +++ b/KEGG_MODULES/M00932_Phylloquinone_biosynthesis.txt @@ -0,0 +1,55 @@ +ENTRY M00932 Pathway Module +NAME Phylloquinone biosynthesis, chorismate (+ phytyl-PP) => phylloquinol +DEFINITION (K02552 K02551 K08680 K02549,K14759) (K01911,K14760) K01661 (K19222,K12073) K23094 K17872 K23095 +ORTHOLOGY K02552 menF; menaquinone-specific isochorismate synthase [EC:5.4.4.2] [RN:R01717] + K02551 menD; 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase [EC:2.2.1.9] [RN:R08165] + K08680 menH; 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate synthase [EC:4.2.99.20] [RN:R08166] + K02549 menC; o-succinylbenzoate synthase [EC:4.2.1.113] [RN:R04031] + K14759 PHYLLO; isochorismate synthase / 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase / 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate synthase / o-succinylbenzoate synthase [EC:5.4.4.2 2.2.1.9 4.2.99.20 4.2.1.113] [RN:R01717 R08165 R08166 R04031] + K01911 menE; o-succinylbenzoic acid---CoA ligase [EC:6.2.1.26] [RN:R04030] + K14760 AAE14; o-succinylbenzoic acid---CoA ligase [EC:6.2.1.26] [RN:R04030] + K01661 menB; naphthoate synthase [EC:4.1.3.36] [RN:R07263] + K19222,K12073 menI, DHNAT; 1,4-dihydroxy-2-naphthoyl-CoA hydrolase [EC:3.1.2.28] [RN:R07262] + K23094 ABC4, menA; 2-carboxy-1,4-naphthoquinone phytyltransferase [EC:2.5.1.130] [RN:R12255] + K17872 NDC1, ndbB; demethylphylloquinone reductase [EC:1.6.5.12] [RN:R11061] + K23095 MENG, menG; demethylphylloquinol methyltransferase [EC:2.1.1.329] [RN:R04994] +CLASS Pathway modules; Metabolism of cofactors and vitamins; Cofactor and vitamin metabolism +PATHWAY map00130 Ubiquinone and other terpenoid-quinone biosynthesis + map01240 Biosynthesis of cofactors + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R01717 C00251 -> C00885 + R08165 C00885 -> C16519 + R08166 C16519 -> C05817 + R04031 C05817 -> C02730 + R04030 C02730 -> C03160 + R07263 C03160 -> C15547 + R07262 C15547 -> C03657 + R12254 C03657 -> C22039 + R12255 C22039 + C05427 -> C13309 + R11061 C13309 -> C21084 + R04994 C21084 -> C03313 +COMPOUND C00251 Chorismate + C00885 Isochorismate + C16519 2-Succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate + C05817 (1R,6R)-6-Hydroxy-2-succinylcyclohexa-2,4-diene-1-carboxylate + C02730 2-Succinylbenzoate + C03160 2-Succinylbenzoyl-CoA + C15547 1,4-Dihydroxy-2-naphthoyl-CoA + C03657 1,4-Dihydroxy-2-naphthoate + C22039 2-Carboxy-1,4-naphthoquinone + C05427 Phytyl diphosphate + C13309 2-Phytyl-1,4-naphthoquinone + C21084 Demethylphylloquinol + C03313 Phylloquinol +REFERENCE PMID:19321747 + AUTHORS Widhalm JR, van Oostende C, Furt F, Basset GJ + TITLE A dedicated thioesterase of the Hotdog-fold family is required for the biosynthesis of the naphthoquinone ring of vitamin K1. + JOURNAL Proc Natl Acad Sci U S A 106:5599-603 (2009) + DOI:10.1073/pnas.0900738106 +REFERENCE PMID:20150517 + AUTHORS Babujee L, Wurtz V, Ma C, Lueder F, Soni P, van Dorsselaer A, Reumann S + TITLE The proteome map of spinach leaf peroxisomes indicates partial compartmentalization of phylloquinone (vitamin K1) biosynthesis in plant peroxisomes. + JOURNAL J Exp Bot 61:1441-53 (2010) + DOI:10.1093/jxb/erq014 +/// diff --git a/KEGG_MODULES/M00933_Plastoquinone_biosynthesis.txt b/KEGG_MODULES/M00933_Plastoquinone_biosynthesis.txt new file mode 100644 index 0000000..6e7fa8f --- /dev/null +++ b/KEGG_MODULES/M00933_Plastoquinone_biosynthesis.txt @@ -0,0 +1,27 @@ +ENTRY M00933 Pathway Module +NAME Plastoquinone biosynthesis, homogentisate + solanesyl-PP => plastoquinol +DEFINITION K12501 K12502 +ORTHOLOGY K12501 HST; homogentisate solanesyltransferase [EC:2.5.1.117] [RN:R08782] + K12502 VTE3; MPBQ/MSBQ methyltransferase [EC:2.1.1.295] [RN:R10709] +CLASS Pathway modules; Metabolism of cofactors and vitamins; Cofactor and vitamin metabolism +PATHWAY map00130 Ubiquinone and other terpenoid-quinone biosynthesis + map01240 Biosynthesis of cofactors + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R08782 C00544 + C04145 -> C17570 + R10709 C17570 -> C16695 +COMPOUND C00544 Homogentisate + C04145 all-trans-Nonaprenyl diphosphate + C17570 2-Methyl-6-solanyl-1,4-benzoquinol + C16695 Plastoquinol-9 +REFERENCE PMID:28018418 + AUTHORS Liu M, Lu S + TITLE Plastoquinone and Ubiquinone in Plants: Biosynthesis, Physiological Function and Metabolic Engineering. + JOURNAL Front Plant Sci 7:1898 (2016) + DOI:10.3389/fpls.2016.01898 +REFERENCE PMID:16989822 + AUTHORS Sadre R, Gruber J, Frentzen M + TITLE Characterization of homogentisate prenyltransferases involved in plastoquinone-9 and tocochromanol biosynthesis. + JOURNAL FEBS Lett 580:5357-62 (2006) + DOI:10.1016/j.febslet.2006.09.002 +/// diff --git a/KEGG_MODULES/M00934_Mycinamicin_biosynthesis.txt b/KEGG_MODULES/M00934_Mycinamicin_biosynthesis.txt new file mode 100644 index 0000000..52dbcf8 --- /dev/null +++ b/KEGG_MODULES/M00934_Mycinamicin_biosynthesis.txt @@ -0,0 +1,39 @@ +ENTRY M00934 Pathway Module +NAME Mycinamicin biosynthesis, malonyl-CoA + methylmalonyl-CoA => protomycinolide IV => mycinamicin II +DEFINITION (K24528+K24559+K24560+K24561+K24562) K24529 (K24292+K24530) K24531 K21540 K21539 K24390 +ORTHOLOGY K24528,K24559,K24560,K24561,K24562 mycA; protomycinolide IV synthase [RN:R12660] + K24529 mycB; protomycinolide IV desosaminyltransferase [EC:2.4.1.-] [RN:R10876] + K24292 mycCI; mycinamicin VIII C21 methyl hydroxylase [EC:1.14.-.-] [RN:R10875] + K24530 mycCII; ferredoxin [RN:R10875] + K24531 mycD; mycinamicin VII 6-deoxyallosyltransferase [EC:2.4.1.-] [RN:R10874] + K21540 mycE; mycinamicin VI 2''-O-methyltransferase [EC:2.1.1.238] [RN:R09822] + K21539 mycF; mycinamicin III 3''-O-methyltransferase [EC:2.1.1.237] [RN:R09823] + K24390 mycG; mycinamicin IV hydroxylase/epoxidase [EC:1.14.-.-] [RN:R10877 R10878] +CLASS Pathway modules; Biosynthesis of terpenoids and polyketides; Macrolide biosynthesis +PATHWAY map00522 Biosynthesis of 12-, 14- and 16-membered macrolides + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R12660 C00083 + C02557 -> C15685 + R10876 C15685 -> C15684 + R10875 C15684 -> C15683 + R10874 C15683 -> C15682 + R09822 C15682 -> C15681 + R09823 C15681 -> C18846 + R10877 C18846 -> C18847 + R10878 C18847 -> C15680 +COMPOUND C00083 Malonyl-CoA + C02557 Methylmalonyl-CoA + C15685 Protomycinolide IV + C15684 Mycinamicin VIII + C15683 Mycinamicin VII + C15682 Mycinamicin VI + C15681 Mycinamicin III + C18846 Mycinamicin IV + C18847 Mycinamicin V + C15680 Mycinamicin II +REFERENCE PMID:18804032 + AUTHORS Anzai Y, Li S, Chaulagain MR, Kinoshita K, Kato F, Montgomery J, Sherman DH. + TITLE Functional analysis of MycCI and MycG, cytochrome P450 enzymes involved in biosynthesis of mycinamicin macrolide antibiotics. + JOURNAL Chem Biol 15:950-9 (2008) + DOI:10.1016/j.chembiol.2008.07.014 +/// diff --git a/KEGG_MODULES/M00935_Methanofuran_biosynthesis.txt b/KEGG_MODULES/M00935_Methanofuran_biosynthesis.txt new file mode 100644 index 0000000..586bf13 --- /dev/null +++ b/KEGG_MODULES/M00935_Methanofuran_biosynthesis.txt @@ -0,0 +1,40 @@ +ENTRY M00935 Pathway Module +NAME Methanofuran biosynthesis +DEFINITION K09733 K19793 K07144 + K18933 K06914 + K07072 +ORTHOLOGY K09733 mfnB; (5-formylfuran-3-yl)methyl phosphate synthase [EC:4.2.3.153] [RN:R10935] + K19793 mfnC; (5-formylfuran-3-yl)methyl phosphate transaminase [EC:2.6.1.108] [RN:R11038] + K07144 mfnE; 5-(aminomethyl)-3-furanmethanol phosphate kinase [EC:2.7.4.31] [RN:R11039] + K18933 mfnA; tyrosine decarboxylase [EC:4.1.1.25] [RN:R00736] + K06914 mfnD; tyramine---L-glutamate ligase [EC:6.3.4.24] [RN:R10902] + K07072 mfnF; (4-(4-[2-(gamma-L-glutamylamino)ethyl]phenoxymethyl)furan-2-yl)methanamine synthase [EC:2.5.1.131] [RN:R11040] +CLASS Pathway modules; Energy metabolism; Methane metabolism +PATHWAY map00680 Methane metabolism + map01240 Biosynthesis of cofactors + map01100 Metabolic pathways +REACTION R10935 C00118 -> C20954 + R11038 C20954 -> C21068 + R11039 C21068 -> C21069 + R00736 C00082 -> C00483 + R10902 C00483 -> C20926 + R11040 C21069 + C20926 -> C21070 +COMPOUND C00118 D-Glyceraldehyde 3-phosphate + C20954 (5-Formylfuran-3-yl)methyl phosphate + C21068 [5-(Aminomethyl)furan-3-yl]methyl phosphate + C21069 [5-(Aminomethyl)furan-3-yl]methyl diphosphate + C00082 L-Tyrosine + C00483 Tyramine + C20926 gamma-Glutamyltyramine + C21070 (4-{4-[2-(gamma-L-Glutamylamino)ethyl]phenoxymethyl}furan-2-yl)methanamine +REFERENCE PMID:15715981 + AUTHORS Kezmarsky ND, Xu H, Graham DE, White RH + TITLE Identification and characterization of a L-tyrosine decarboxylase in Methanocaldococcus jannaschii. + JOURNAL Biochim Biophys Acta 1722:175-82 (2005) + DOI:10.1016/j.bbagen.2004.12.003 +REFERENCE PMID:26100040 + AUTHORS Wang Y, Xu H, Jones MK, White RH + TITLE Identification of the Final Two Genes Functioning in Methanofuran Biosynthesis in Methanocaldococcus jannaschii. + JOURNAL J Bacteriol 197:2850-8 (2015) + DOI:10.1128/JB.00401-15 +/// diff --git a/KEGG_MODULES/M00936_Melatonin_biosynthesis_plants.txt b/KEGG_MODULES/M00936_Melatonin_biosynthesis_plants.txt new file mode 100644 index 0000000..03f5e1a --- /dev/null +++ b/KEGG_MODULES/M00936_Melatonin_biosynthesis_plants.txt @@ -0,0 +1,26 @@ +ENTRY M00936 Pathway Module +NAME Melatonin biosynthesis, plants, tryptophan => serotonin => melatonin +DEFINITION K01593 K24541 K22450 (K22588,K13066) +ORTHOLOGY K01593 aromatic-L-amino-acid/L-tryptophan decarboxylase [EC:4.1.1.28 4.1.1.105] [RN:R00685] + K24541 tryptamine 5-hydroxylase [EC:1.14.-.-] [RN:R12659] + K22450 aralkylamine N-acetyltransferase [EC:2.3.1.87] [RN:R02911] + K22588,K13066 acetylserotonin O-methyltransferase [EC:2.1.1.4] [RN:R03130] +CLASS Pathway modules; Amino acid metabolism; Aromatic amino acid metabolism +PATHWAY map00380 Tryptophan metabolism + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R00685 C00078 -> C00398 + R12659 C00398 -> C00780 + R02911 C00780 -> C00978 + R03130 C00978 -> C01598 +COMPOUND C00078 L-Tryptophan + C00398 Tryptamine + C00780 Serotonin + C00978 N-Acetylserotonin + C01598 Melatonin +REFERENCE PMID:27600803 + AUTHORS Back K, Tan DX, Reiter RJ + TITLE Melatonin biosynthesis in plants: multiple pathways catalyze tryptophan to melatonin in the cytoplasm or chloroplasts. + JOURNAL J Pineal Res 61:426-437 (2016) + DOI:10.1111/jpi.12364 +/// diff --git a/KEGG_MODULES/M00937_Aflatoxin_biosynthesis.txt b/KEGG_MODULES/M00937_Aflatoxin_biosynthesis.txt new file mode 100644 index 0000000..4bb990b --- /dev/null +++ b/KEGG_MODULES/M00937_Aflatoxin_biosynthesis.txt @@ -0,0 +1,64 @@ +ENTRY M00937 Pathway Module +NAME Aflatoxin biosynthesis, malonyl-CoA => aflatoxin B1 +DEFINITION K15316 K17643 K17644 K17645 K17652 K17646 K24440 K24855 K17648 K24439 (K24856+K24438+K24857+K24858) K17649 K17650 K17651 +ORTHOLOGY K15316 noranthrone synthase [EC:2.3.1.221] [RN:R10239] + K17643 noranthrone monooxygenase [EC:1.13.12.20] [RN:R10224] + K17644 norsolorinic acid ketoreductase [EC:1.1.1.349] [RN:R10309] + K17645 averantin hydroxylase [EC:1.14.14.116] [RN:R10317 R10318] + K17652 5'-hydroxyaverantin dehydrogenase [EC:1.1.1.352] [RN:R10310 R10311] + K17646 5'-oxoaverantin cyclase / versicolorin B synthase [EC:4.2.1.142 4.2.1.143] [RN:R10475 R10402] + K24440 averufin monooxygenase [EC:1.14.-.-] [RN:R10476] + K24855 hydroxyversicolorone monooxygenase [EC:1.14.13.-] [RN:R10477] + K17648 versiconal hemiacetal acetate esterase [EC:3.1.1.94] [RN:R10401] + K24439 versicolorin B desaturase [EC:1.14.-.-] [RN:R10479] + K24856 NADPH-dependent reductase [RN:R10481] + K24438 sterigmatocystin biosynthesis cytochrome P450 monooxygenase [RN:R10481] + K24857 oxidoreductase AflX [RN:R10481] + K24858 oxidoreductase AflY [RN:R10481] + K17649 demethylsterigmatocystin 6-O-methyltransferase [EC:2.1.1.109] [RN:R03112] + K17650 sterigmatocystin 8-O-methyltransferase [EC:2.1.1.110] [RN:R03111] + K17651 aflatoxin B synthase [EC:1.14.14.117] [RN:R10319] +CLASS Pathway modules; Biosynthesis of other secondary metabolites; Biosynthesis of other fungal compounds +PATHWAY map00254 Aflatoxin biosynthesis + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R10239 C00083 -> C20453 + R10224 C20453 -> C20452 + R10309 C20452 -> C20499 + R10317 C20499 -> C20500 + R10310 C20500 -> C20502 + R10318 C20499 -> C20501 + R10311 C20501 -> C20502 + R10475 C20502 -> C20574 + R10476 C20574 -> C20503 + R10477 C20503 -> C20505 + R10401 C20505 -> C20507 + R10402 C20507 -> C20575 + R10479 C20575 -> C20583 + R10481 C20583 -> C03683 + R03112 C03683 -> C00961 + R03111 C00961 -> C03686 + R10319 C03686 -> C06800 +COMPOUND C00083 Malonyl-CoA + C20453 Norsolorinic acid anthrone + C20452 Norsolorinic acid + C20499 (1'S)-Averantin + C20500 (1'S,5'S)-5'-Hydroxyaverantin + C20502 5'-Oxoaverantin + C20501 (1'S,5'R)-5'-Hydroxyaverantin + C20574 (1'S,5'S)-Averufin + C20503 1'-Hydroxyversicolorone + C20505 Versiconal hemiacetal acetate + C20507 Versiconal + C20575 Versicolorin B + C20583 Versicolorin A + C03683 6-Demethylsterigmatocystin + C00961 Sterigmatocystin + C03686 O-Methylsterigmatocystin + C06800 Aflatoxin B1 +REFERENCE PMID:15006741 + AUTHORS Yu J, Chang PK, Ehrlich KC, Cary JW, Bhatnagar D, Cleveland TE, Payne GA, Linz JE, Woloshuk CP, Bennett JW + TITLE Clustered pathway genes in aflatoxin biosynthesis. + JOURNAL Appl Environ Microbiol 70:1253-62 (2004) + DOI:10.1128/AEM.70.3.1253-1262.2004 +/// diff --git a/KEGG_MODULES/M00938_Pyrimidine_deoxyribonucleotide_biosynthesis.txt b/KEGG_MODULES/M00938_Pyrimidine_deoxyribonucleotide_biosynthesis.txt new file mode 100644 index 0000000..0ccab98 --- /dev/null +++ b/KEGG_MODULES/M00938_Pyrimidine_deoxyribonucleotide_biosynthesis.txt @@ -0,0 +1,32 @@ +ENTRY M00938 Pathway Module +NAME Pyrimidine deoxyribonucleotide biosynthesis, UDP => dTTP +DEFINITION (K00525+K00526,K10807+K10808) (K00940,K18533) K01520 (K00560,K13998,K03465) K00943 +ORTHOLOGY K00525,K00526,K10807,K10808 ribonucleoside-diphosphate reductase alpha chain [EC:1.17.4.1] [RN:R02018] + K00940,K18533 nucleoside-diphosphate kinase [EC:2.7.4.6] [RN:R02331 R02093] + K01520 dUTP pyrophosphatase [EC:3.6.1.23] [RN:R02100] + K00560,K13998 thymidylate synthase [EC:2.1.1.45] [RN:R02101] + K03465 thymidylate synthase (FAD) [EC:2.1.1.148] [RN:R06613] + K00943 dTMP kinase [EC:2.7.4.9] [RN:R02094] +CLASS Pathway modules; Nucleotide metabolism; Pyrimidine metabolism +PATHWAY map00240 Pyrimidine metabolism + map01232 Nucleotide metabolism + map01100 Metabolic pathways +REACTION R02018 C00015 -> C01346 + R02331 C01346 -> C00460 + R02100 C00460 -> C00365 + R02101,R06613 C00365 -> C00364 + R02094 C00364 -> C00363 + R02093 C00363 -> C00459 +COMPOUND C00015 UDP + C01346 dUDP + C00460 dUTP + C00365 dUMP + C00364 dTMP + C00363 dTDP + C00459 dTTP +REFERENCE PMID:28458037 + AUTHORS Okesli A, Khosla C, Bassik MC + TITLE Human pyrimidine nucleotide biosynthesis as a target for antiviral chemotherapy. + JOURNAL Curr Opin Biotechnol 48:127-134 (2017) + DOI:10.1016/j.copbio.2017.03.010 +/// diff --git a/KEGG_MODULES/M00939_Pyrimidine_degradation.txt b/KEGG_MODULES/M00939_Pyrimidine_degradation.txt new file mode 100644 index 0000000..0c66e66 --- /dev/null +++ b/KEGG_MODULES/M00939_Pyrimidine_degradation.txt @@ -0,0 +1,28 @@ +ENTRY M00939 Pathway Module +NAME Pyrimidine degradation, uracil => 3-hydroxypropanoate +DEFINITION (K09018+K09024) K09020 K09021 K09023 (K09019,K16066) +ORTHOLOGY K09018,K09024 rutA; pyrimidine oxygenase [EC:1.14.99.46] [RN:R09936] + K09020 rutB; ureidoacrylate peracid hydrolase [EC:3.5.1.110] [RN:R09947] + K09021 rutC; aminoacrylate peracid reductase [RN:R09982] + K09023 rutD; aminoacrylate hydrolase [EC:3.5.1.-] [RN:R09983] + K09019,K16066 rutE; 3-hydroxypropanoate dehydrogenase [EC:1.1.1.-] [RN:R09289] +CLASS Pathway modules; Nucleotide metabolism; Pyrimidine metabolism +PATHWAY map00240 Pyrimidine metabolism + map01100 Metabolic pathways +REACTION R09936 C00106 -> C20231 + R09947 C20231 -> C20249 + R09982 C20249 -> C20253 + R09983 C20253 -> C00222 + R09289 C00222 -> C01013 +COMPOUND C00106 Uracil + C20231 (Z)-3-Ureidoacrylate peracid + C20249 (Z)-3-Peroxyaminoacrylate + C20253 Aminoacrylate + C00222 3-Oxopropanoate + C01013 3-Hydroxypropanoate +REFERENCE PMID:20400551 + AUTHORS Kim KS, Pelton JG, Inwood WB, Andersen U, Kustu S, Wemmer DE + TITLE The Rut pathway for pyrimidine degradation: novel chemistry and toxicity problems. + JOURNAL J Bacteriol 192:4089-102 (2010) + DOI:10.1128/JB.00201-10 +/// diff --git a/KEGG_MODULES/M00940_Flavanone_biosynthesis.txt b/KEGG_MODULES/M00940_Flavanone_biosynthesis.txt new file mode 100644 index 0000000..cb69276 --- /dev/null +++ b/KEGG_MODULES/M00940_Flavanone_biosynthesis.txt @@ -0,0 +1,20 @@ +ENTRY M00940 Pathway Module +NAME Flavanone biosynthesis, p-coumaroyl-CoA => liquiritigenin +DEFINITION (K00660+K08243) K01859 +ORTHOLOGY K00660,K08243 6'-deoxychalcone synthase [EC:2.3.1.170] [RN:R06568] + K01859 chalcone isomerase [EC:5.5.1.6] [RN:R06556] +CLASS Pathway modules; Biosynthesis of other secondary metabolites; Biosynthesis of phytochemical compounds +PATHWAY map00941 Flavonoid biosynthesis + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R06568 C00223 -> C08650 + R06556 C08650 -> C09762 +COMPOUND C00223 p-Coumaroyl-CoA + C08650 Isoliquiritigenin + C09762 Liquiritigenin +REFERENCE PMID:31338097 + AUTHORS Nakayama T, Takahashi S, Waki T + TITLE Formation of Flavonoid Metabolons: Functional Significance of Protein-Protein Interactions and Impact on Flavonoid Chemodiversity. + JOURNAL Front Plant Sci 10:821 (2019) + DOI:10.3389/fpls.2019.00821 +/// diff --git a/KEGG_MODULES/M00941_Isoflavone_biosynthesis.txt b/KEGG_MODULES/M00941_Isoflavone_biosynthesis.txt new file mode 100644 index 0000000..db5776f --- /dev/null +++ b/KEGG_MODULES/M00941_Isoflavone_biosynthesis.txt @@ -0,0 +1,25 @@ +ENTRY M00941 Pathway Module +NAME Isoflavone biosynthesis, liquiritigenin/naringenin => daidzein/genistein +DEFINITION K13257 K13258 +ORTHOLOGY K13257 2-hydroxyisoflavanone synthase [EC:1.14.14.87] [RN:R07777 R07778] + K13258 2-hydroxyisoflavanone dehydratase [EC:4.2.1.105] [RN:R07317 R06793] +CLASS Pathway modules; Biosynthesis of other secondary metabolites; Biosynthesis of phytochemical compounds +PATHWAY map00943 Isoflavonoid biosynthesis + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R07777 C09762 -> C15567 + R07317 C15567 -> C10208 + R07778 C00509 -> C12631 + R06793 C12631 -> C06563 +COMPOUND C09762 Liquiritigenin + C15567 2,7,4'-Trihydroxyisoflavanone + C10208 Daidzein + C00509 Naringenin + C12631 2-Hydroxy-2,3-dihydrogenistein + C06563 Genistein +REFERENCE PMID:31338097 + AUTHORS Nakayama T, Takahashi S, Waki T + TITLE Formation of Flavonoid Metabolons: Functional Significance of Protein-Protein Interactions and Impact on Flavonoid Chemodiversity. + JOURNAL Front Plant Sci 10:821 (2019) + DOI:10.3389/fpls.2019.00821 +/// diff --git a/KEGG_MODULES/M00942_Pterocarpan_biosynthesis.txt b/KEGG_MODULES/M00942_Pterocarpan_biosynthesis.txt new file mode 100644 index 0000000..b5ecae1 --- /dev/null +++ b/KEGG_MODULES/M00942_Pterocarpan_biosynthesis.txt @@ -0,0 +1,29 @@ +ENTRY M00942 Pathway Module +NAME Pterocarpan biosynthesis, daidzein => medicarpin +DEFINITION K13259 K13260 K05281 K13265 K25075 +ORTHOLOGY K13259 isoflavone 4'-O-methyltransferase [EC:2.1.1.46] [RN:R06564] + K13260 isoflavone/4'-methoxyisoflavone 2'-hydroxylase [EC:1.14.14.90 1.14.14.89] [RN:R06560] + K05281 2'-hydroxyisoflavone reductase [EC:1.3.1.45] [RN:R06562] + K13265 vestitone reductase [EC:1.1.1.348] [RN:R07737] + K25075 pterocarpan synthase [EC:4.2.1.139] [RN:R07738] +CLASS Pathway modules; Biosynthesis of other secondary metabolites; Biosynthesis of phytochemical compounds +PATHWAY map00943 Isoflavonoid biosynthesis + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R06564 C10208 -> C00858 + R06560 C00858 -> C02920 + R06562 C02920 -> C00786 + R07737 C00786 -> C16187 + R07738 C16187 -> C10503 +COMPOUND C10208 Daidzein + C00858 Formononetin + C02920 2'-Hydroxyformononetin + C00786 (-)-Vestitone + C16187 7,2'-Dihydroxy-4'-methoxy-isoflavanol + C10503 Medicarpin +REFERENCE PMID:18272377 + AUTHORS Ferrer JL, Austin MB, Stewart C Jr, Noel JP + TITLE Structure and function of enzymes involved in the biosynthesis of phenylpropanoids. + JOURNAL Plant Physiol Biochem 46:356-70 (2008) + DOI:10.1016/j.plaphy.2007.12.009 +/// diff --git a/KEGG_MODULES/M00943_Reticuline_biosynthesis.txt b/KEGG_MODULES/M00943_Reticuline_biosynthesis.txt new file mode 100644 index 0000000..4c792f7 --- /dev/null +++ b/KEGG_MODULES/M00943_Reticuline_biosynthesis.txt @@ -0,0 +1,30 @@ +ENTRY M00943 Pathway Module +NAME Reticuline biosynthesis, dopamine + 4HPAA => (S)-reticuline +DEFINITION K13382 K13383 K13384 K13385 K13386 +ORTHOLOGY K13382 (S)-norcoclaurine synthase [EC:4.2.1.78] [RN:R04305] + K13383 (RS)-norcoclaurine 6-O-methyltransferase [EC:2.1.1.128] [RN:R05123] + K13384 (S)-coclaurine-N-methyltransferase [EC:2.1.1.140] [RN:R04692] + K13385 N-methylcoclaurine 3'-monooxygenase [EC:1.14.14.102] [RN:R05732] + K13386 3'-hydroxy-N-methyl-(S)-coclaurine 4'-O-methyltransferase [EC:2.1.1.116] [RN:R03832] +CLASS Pathway modules; Biosynthesis of other secondary metabolites; Biosynthesis of phytochemical compounds +PATHWAY map00950 Isoquinoline alkaloid biosynthesis + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R04305 C03765 + C03758 -> C06160 + R05123 C06160 -> C06161 + R04692 C06161 -> C05176 + R05732 C05176 -> C05202 + R03832 C05202 -> C02105 +COMPOUND C03765 4-Hydroxyphenylacetaldehyde + C03758 Dopamine + C06160 (S)-Norcoclaurine + C06161 (S)-Coclaurine + C05176 (S)-N-Methylcoclaurine + C05202 3'-Hydroxy-N-methyl-(S)-coclaurine + C02105 (S)-Reticuline +REFERENCE PMID:24671624 + AUTHORS Beaudoin GA, Facchini PJ. + TITLE Benzylisoquinoline alkaloid biosynthesis in opium poppy. + JOURNAL Planta 240:19-32 (2014) + DOI:10.1007/s00425-014-2056-8 +/// diff --git a/KEGG_MODULES/M00944_Morphine_biosynthesis.txt b/KEGG_MODULES/M00944_Morphine_biosynthesis.txt new file mode 100644 index 0000000..aa6e6f5 --- /dev/null +++ b/KEGG_MODULES/M00944_Morphine_biosynthesis.txt @@ -0,0 +1,40 @@ +ENTRY M00944 Pathway Module +NAME Morphine biosynthesis, (S)-reticuline => morphine +DEFINITION K22093 K13391 K13392 K13393 K01742 K14975 K14976 K13394 +ORTHOLOGY K22093 1,2-dehydroreticuline synthase/reductase [EC:1.14.19.54 1.5.1.27] [RN:R03833 R04695] + K13391 salutaridine synthase [EC:1.14.19.67] [RN:R04696] + K13392 salutaridine reductase (NADPH) [EC:1.1.1.248] [RN:R04697] + K13393 salutaridinol 7-O-acetyltransferase [EC:2.3.1.150] [RN:R04723] + K01742 thebaine synthase [EC:4.2.99.24] [RN:R04769] + K14975 codeine 3-O-demethylase [EC:1.14.11.32] [RN:R05127] + K14976 thebaine 6-O-demethylase [EC:1.14.11.31] [RN:R03698] + K13394 codeinone reductase [EC:1.1.1.247] [RN:R03592] +CLASS Pathway modules; Biosynthesis of other secondary metabolites; Biosynthesis of phytochemical compounds +PATHWAY map00950 Isoquinoline alkaloid biosynthesis + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R03833 C02105 -> C06167 + R04695 C06167 -> C05178 + R04696 C05178 -> C05179 + R04697 C05179 -> C05220 + R04723 C05220 -> C05322 + R04769 C05322 -> C06173 + R05127 C06173 -> C06175 + R03698 C06175 -> C01735 + R03592 C01735 -> C01516 +COMPOUND C02105 (S)-Reticuline + C06167 1,2-Dehydroreticuline + C05178 (R)-Reticuline + C05179 Salutaridine + C05220 Salutaridinol + C05322 7-O-Acetylsalutaridinol + C06173 Thebaine + C06175 Oripavine + C01735 Morphinone + C01516 Morphine +REFERENCE PMID:24671624 + AUTHORS Beaudoin GA, Facchini PJ. + TITLE Benzylisoquinoline alkaloid biosynthesis in opium poppy. + JOURNAL Planta 240:19-32 (2014) + DOI:10.1007/s00425-014-2056-8 +/// diff --git a/KEGG_MODULES/M00945_Sanguinarine_biosynthesis.txt b/KEGG_MODULES/M00945_Sanguinarine_biosynthesis.txt new file mode 100644 index 0000000..807714a --- /dev/null +++ b/KEGG_MODULES/M00945_Sanguinarine_biosynthesis.txt @@ -0,0 +1,37 @@ +ENTRY M00945 Pathway Module +NAME Sanguinarine biosynthesis, (S)-reticuline => sanguinarine +DEFINITION K00307 K21070 K13395 K13396 K21692 K21693 K22089 +ORTHOLOGY K00307 reticuline oxidase [EC:1.21.3.3] [RN:R03831] + K21070 (S)-cheilanthifoline synthase [EC:1.14.19.65] [RN:R03834] + K13395 (S)-stylopine synthase [EC:1.14.19.64] [RN:R04690] + K13396 (S)-tetrahydroprotoberberine N-methyltransferase [EC:2.1.1.122] [RN:R04691] + K21692 methyltetrahydroprotoberberine 14-monooxygenase [EC:1.14.14.97] [RN:R04700] + K21693 protopine 6-monooxygenase [EC:1.14.14.98] [RN:R04699] + K22089 tetrahydroprotoberberine oxidase [EC:1.3.3.8] [RN:R04703] +CLASS Pathway modules; Biosynthesis of other secondary metabolites; Biosynthesis of phytochemical compounds +PATHWAY map00950 Isoquinoline alkaloid biosynthesis + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R03831 C02105 -> C02106 + R03834 C02106 -> C05174 + R04690 C05174 -> C05175 + R04691 C05175 -> C06163 + R04700 C06163 -> C05189 + R04699 C05189 -> C05190 + R04701 C05190 -> C05191 + R04703 C05191 -> C06162 +COMPOUND C02105 (S)-Reticuline + C02106 (S)-Scoulerine + C05174 (S)-Cheilanthifoline + C05175 Stylopine + C06163 (S)-cis-N-Methylstylopine + C05189 Protopine + C05190 6-Hydroxyprotopine + C05191 Dihydrosanguinarine + C06162 Sanguinarine +REFERENCE PMID:24671624 + AUTHORS Beaudoin GA, Facchini PJ. + TITLE Benzylisoquinoline alkaloid biosynthesis in opium poppy. + JOURNAL Planta 240:19-32 (2014) + DOI:10.1007/s00425-014-2056-8 +/// diff --git a/KEGG_MODULES/M00946_Noscapine_biosynthesis.txt b/KEGG_MODULES/M00946_Noscapine_biosynthesis.txt new file mode 100644 index 0000000..8d54507 --- /dev/null +++ b/KEGG_MODULES/M00946_Noscapine_biosynthesis.txt @@ -0,0 +1,51 @@ +ENTRY M00946 Pathway Module +NAME Noscapine biosynthesis, (S)-reticuline => noscapine +DEFINITION K00307 K13397 K13395 K13396 K20621 K22094 K22095 K22096 (K23157+K23158) K22097 K22098 +ORTHOLOGY K00307 reticuline oxidase [EC:1.21.3.3] [RN:R03831] + K13397 (S)-scoulerine 9-O-methyltransferase [EC:2.1.1.117] [RN:R03835] + K13395 (S)-canadine synthase [EC:1.14.19.68] [RN:R04400] + K13396 (S)-tetrahydroprotoberberine N-methyltransferase [EC:2.1.1.122] [RN:R08789] + K20621 (S)-N-methylcanadine 1-hydroxylase [EC:1.14.14.166] [RN:R11687] + K22094 (S)-1-hydroxy-N-methylcanadine 13-hydroxylase [EC:1.14.14.163] [RN:R11688] + K22095 (13S,14R)-1,13-dihydroxy-N-methylcandine 13-O-acetyltransferase [EC:2.3.1.285] [RN:R11689] + K22096 (13S,14R)-13-O-acetyl-1-hydroxy-N-methylcanadine 8-hydroxylase [EC:1.14.14.167] [RN:R11690] + K23157,K23158 3-O-acetyl-4'-O-demethylpapaveroxine 4'-O-methyltransferase [EC:2.1.1.352] [RN:R11692] + K22097 3-O-acetylpapaveroxine carboxylesterase [EC:3.1.1.105] [RN:R11693] + K22098 noscapine synthase [EC:1.1.1.415] [RN:R10020] +CLASS Pathway modules; Biosynthesis of other secondary metabolites; Biosynthesis of phytochemical compounds +PATHWAY map00950 Isoquinoline alkaloid biosynthesis + map01100 Metabolic pathways + map01110 Biosynthesis of secondary metabolites +REACTION R03831 C02105 -> C02106 + R03835 C02106 -> C04118 + R04400 C04118 -> C03329 + R08789 C03329 -> C02915 + R11687 C02915 -> C21586 + R11688 C21586 -> C21587 + R11689 C21587 -> C21588 + R11690 C21588 -> C21589 + R11691 C21589 -> C21590 + R11692 C21590 -> C21591 + R11693 C21591 -> C20299 + R10018 C20299 -> C20297 + R10020 C20297 -> C09592 +COMPOUND C02105 (S)-Reticuline + C02106 (S)-Scoulerine + C04118 Isocorypalmine + C03329 (S)-Canadine + C02915 (S)-N-Methylcanadine + C21586 (S)-1-Hydroxy-N-methylcanadine + C21587 (13S,14R)-1,13-Dihydroxy-N-methylcanadine + C21588 (13S,14R)-1-Hydroxy-13-O-acetyl-N-methylcanadine + C21589 (13S,14R)-1,8-Dihydroxy-13-O-acetyl-N-methylcanadine + C21590 4'-O-Desmethyl-3-O-acetylpapaveroxine + C21591 3-O-Acetylpapaveroxine + C20299 Papaveroxine + C20297 Narcotine hemiacetal + C09592 Noscapine +REFERENCE PMID:24671624 + AUTHORS Beaudoin GA, Facchini PJ. + TITLE Benzylisoquinoline alkaloid biosynthesis in opium poppy. + JOURNAL Planta 240:19-32 (2014) + DOI:10.1007/s00425-014-2056-8 +/// diff --git a/KEGG_MODULES/M00947_D-Arginine_racemization.txt b/KEGG_MODULES/M00947_D-Arginine_racemization.txt new file mode 100644 index 0000000..d4d7d27 --- /dev/null +++ b/KEGG_MODULES/M00947_D-Arginine_racemization.txt @@ -0,0 +1,19 @@ +ENTRY M00947 Pathway Module +NAME D-Arginine racemization, D-arginine => L-arginine +DEFINITION K19746 K19744 +ORTHOLOGY K19746 dauA; D-arginine dehydrogenase [EC:1.4.99.6] [RN:R11018] + K19744 dauB; L-arginine dehydrogenase [EC:1.4.1.25] [RN:R11031 R11032] +CLASS Pathway modules; Amino acid metabolism; Other amino acid metabolism +PATHWAY map00470 D-Amino acid metabolism + map01100 Metabolic pathways +REACTION R11018 C00792 -> C03771 + R11031,R11032 C03771 -> C00062 +COMPOUND C00792 D-Arginine + C03771 5-Guanidino-2-oxopentanoate + C00062 L-Arginine +REFERENCE PMID:19139398 + AUTHORS Li C, Lu CD + TITLE Arginine racemization by coupled catabolic and anabolic dehydrogenases. + JOURNAL Proc Natl Acad Sci U S A 106:906-11 (2009) + DOI:10.1073/pnas.0808269106 +/// diff --git a/KEGG_MODULES/M00948_Hydroxyproline_degradation.txt b/KEGG_MODULES/M00948_Hydroxyproline_degradation.txt new file mode 100644 index 0000000..12b95a5 --- /dev/null +++ b/KEGG_MODULES/M00948_Hydroxyproline_degradation.txt @@ -0,0 +1,25 @@ +ENTRY M00948 Pathway Module +NAME Hydroxyproline degradation, trans-4-hydroxy-L-proline => 2-oxoglutarate +DEFINITION K12658 (K21060,K22549+K21061+K22550) K21062 K13877 +ORTHOLOGY K12658 4-hydroxyproline epimerase [EC:5.1.1.8] [RN:R03296] + K21060,K22549,K21061,K22550 D-hydroxyproline dehydrogenase [EC:1.5.99.-] [RN:R11428] + K21062 1-pyrroline-4-hydroxy-2-carboxylate deaminase [EC:3.5.4.22] [RN:R02280] + K13877 2,5-dioxopentanoate dehydrogenase [EC:1.2.1.26] [RN:R00264] +CLASS Pathway modules; Amino acid metabolism; Other amino acid metabolism +PATHWAY map00470 D-Amino acid metabolism + map01100 Metabolic pathways +REACTION R03296 C01157 -> C03440 + R11428 C03440 -> C04282 + R02280 C04282 -> C00433 + R00264 C00433 -> C00026 +COMPOUND C01157 Hydroxyproline + C03440 cis-4-Hydroxy-D-proline + C04282 1-Pyrroline-4-hydroxy-2-carboxylate + C00433 2,5-Dioxopentanoate + C00026 2-Oxoglutarate +REFERENCE PMID:22833679 + AUTHORS Watanabe S, Morimoto D, Fukumori F, Shinomiya H, Nishiwaki H, Kawano-Kawada M, Sasai Y, Tozawa Y, Watanabe Y + TITLE Identification and characterization of D-hydroxyproline dehydrogenase and Delta1-pyrroline-4-hydroxy-2-carboxylate deaminase involved in novel L-hydroxyproline metabolism of bacteria: metabolic convergent evolution. + JOURNAL J Biol Chem 287:32674-88 (2012) + DOI:10.1074/jbc.M112.374272 +/// diff --git a/KEGG_MODULES/M00949_Staphylopine_biosynthesis.txt b/KEGG_MODULES/M00949_Staphylopine_biosynthesis.txt new file mode 100644 index 0000000..b7c1fab --- /dev/null +++ b/KEGG_MODULES/M00949_Staphylopine_biosynthesis.txt @@ -0,0 +1,22 @@ +ENTRY M00949 Pathway Module +NAME Staphylopine biosynthesis, L-histidine => staphylopine +DEFINITION K01780 K23120 K23122 +ORTHOLOGY K01780 cntK; histidine racemase [EC:5.1.1.24] [RN:R12313] + K23120 cntL; histidine 2-aminobutanoyltransferase [EC:2.5.1.152] [RN:R12341] + K23122 cntM; staphylopine synthase [EC:1.5.1.52] [RN:R12237] +CLASS Pathway modules; Amino acid metabolism; Other amino acid metabolism +PATHWAY map00470 D-Amino acid metabolism + map01100 Metabolic pathways +REACTION R12313 C00135 -> C06419 + R12341 C06419 -> C22025 + R12237 C22025 -> C22024 +COMPOUND C00135 L-Histidine + C06419 D-Histidine + C22025 (2S)-2-Amino-4-{[(1R)-1-carboxy-2-(1H-imidazol-4-yl)ethyl]amino}butanoate + C22024 Staphylopine +REFERENCE PMID:27230378 + AUTHORS Ghssein G, Brutesco C, Ouerdane L, Fojcik C, Izaute A, Wang S, Hajjar C, Lobinski R, Lemaire D, Richaud P, Voulhoux R, Espaillat A, Cava F, Pignol D, Borezee-Durant E, Arnoux P + TITLE Biosynthesis of a broad-spectrum nicotianamine-like metallophore in Staphylococcus aureus. + JOURNAL Science 352:1105-9 (2016) + DOI:10.1126/science.aaf1018 +/// diff --git a/KEGG_MODULES/M00950_Biotin_biosynthesis_BioU_pathway.txt b/KEGG_MODULES/M00950_Biotin_biosynthesis_BioU_pathway.txt new file mode 100644 index 0000000..d650e5b --- /dev/null +++ b/KEGG_MODULES/M00950_Biotin_biosynthesis_BioU_pathway.txt @@ -0,0 +1,28 @@ +ENTRY M00950 Pathway Module +NAME Biotin biosynthesis, BioU pathway, pimeloyl-ACP/CoA => biotin +DEFINITION K00652 K25570 K01935 K01012 +ORTHOLOGY K00652 bioF; 8-amino-7-oxononanoate synthase [EC:2.3.1.47] [RN:R10124 R03210] + K25570 bioU; 8-amino-7-oxononanoate carboxylating dehydrogenase [EC:2.6.1.121] [RN:R12935] + K01935 bioD; dethiobiotin synthetase [EC:6.3.3.3] [RN:R12934] + K01012 bioB; biotin synthase [EC:2.8.1.6] [RN:R01078] +CLASS Pathway modules; Metabolism of cofactors and vitamins; Cofactor and vitamin metabolism +PATHWAY map00780 Biotin metabolism + map01240 Biosynthesis of cofactors + map01100 Metabolic pathways +REACTION R10124 C19845 -> C01092 + R03210 C01063 -> C01092 + R12935 C01092 -> C22458 + R12934 C22458 -> C01909 + R01078 C01909 -> C00120 +COMPOUND C19845 Pimeloyl-[acyl-carrier protein] + C01092 8-Amino-7-oxononanoate + C01063 Pimeloyl-CoA + C22458 8-Amino-7-(carboxyamino)nonanoate + C01909 Dethiobiotin + C00120 Biotin +REFERENCE PMID:32042199 + AUTHORS Sakaki K, Ohishi K, Shimizu T, Kobayashi I, Mori N, Matsuda K, Tomita T, Watanabe H, Tanaka K, Kuzuyama T, Nishiyama M. + TITLE A suicide enzyme catalyzes multiple reactions for biotin biosynthesis in cyanobacteria. + JOURNAL Nat Chem Biol 16:415-422 (2020) + DOI:10.1038/s41589-019-0461-9 +/// diff --git a/KEGG_MODULES/kk_files/M00910.kk b/KEGG_MODULES/kk_files/M00910.kk new file mode 100644 index 0000000..49dd48e --- /dev/null +++ b/KEGG_MODULES/kk_files/M00910.kk @@ -0,0 +1,4 @@ +M00910_Phenylalanine_biosynthesis.txt +K01850 +K15849 +K05359 diff --git a/KEGG_MODULES/kk_files/M00911.kk b/KEGG_MODULES/kk_files/M00911.kk new file mode 100644 index 0000000..ec569c1 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00911.kk @@ -0,0 +1,12 @@ +M00911_Riboflavin_biosynthesis_fungi.txt +/ +K01497 +K14654 +K14655 +/ +K02858 +/ +K00794 +K00793 +K00861 +K00953 diff --git a/KEGG_MODULES/kk_files/M00912.kk b/KEGG_MODULES/kk_files/M00912.kk new file mode 100644 index 0000000..379d5b6 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00912.kk @@ -0,0 +1,9 @@ +M00912_NAD_biosynthesis.txt +K00453, K00463 +K01432, K14263, K07130 +K00486 +K01556 +K00452 +K00767 +K00969, K06210 +K01916, K01950 diff --git a/KEGG_MODULES/kk_files/M00913.kk b/KEGG_MODULES/kk_files/M00913.kk new file mode 100644 index 0000000..66a122c --- /dev/null +++ b/KEGG_MODULES/kk_files/M00913.kk @@ -0,0 +1,9 @@ +M00913_Pantothenate_biosynthesis.txt +/ +K00606 +K00077 +/ +K13367 +K00128 +/ +K01918 diff --git a/KEGG_MODULES/kk_files/M00914.kk b/KEGG_MODULES/kk_files/M00914.kk new file mode 100644 index 0000000..c437d2d --- /dev/null +++ b/KEGG_MODULES/kk_files/M00914.kk @@ -0,0 +1,8 @@ +M00914_Coenzyme_A_biosynthesis_archaea.txt +K00606 +K00077 +K06982 +K09722 +K13038 +K02201 +K09735 diff --git a/KEGG_MODULES/kk_files/M00915.kk b/KEGG_MODULES/kk_files/M00915.kk new file mode 100644 index 0000000..581017b --- /dev/null +++ b/KEGG_MODULES/kk_files/M00915.kk @@ -0,0 +1,4 @@ +M00915_Caffeine_degradation.txt +K21722 +K21723 +K21724 diff --git a/KEGG_MODULES/kk_files/M00916.kk b/KEGG_MODULES/kk_files/M00916.kk new file mode 100644 index 0000000..9a2a19b --- /dev/null +++ b/KEGG_MODULES/kk_files/M00916.kk @@ -0,0 +1,4 @@ +M00916_Pyridoxal-P_biosynthesis.txt +K06215, K08681 +COMPLEXES_LIST +K06215+K08681 diff --git a/KEGG_MODULES/kk_files/M00917.kk b/KEGG_MODULES/kk_files/M00917.kk new file mode 100644 index 0000000..9467677 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00917.kk @@ -0,0 +1,16 @@ +M00917_Phytosterol_biosynthesis_squalene_2.txt +/ +K01853 +K00559 +K14423 +K23558 +K08246 +K05917 +K00222 +K01824 +K08242 +/ +K14424 +K00227 +K00213 +K09828 diff --git a/KEGG_MODULES/kk_files/M00918.kk b/KEGG_MODULES/kk_files/M00918.kk new file mode 100644 index 0000000..b02eac6 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00918.kk @@ -0,0 +1,5 @@ +M00918_Aerobactin_biosynthesis.txt +K03897 +K03896 +K03894 +K03895 diff --git a/KEGG_MODULES/kk_files/M00919.kk b/KEGG_MODULES/kk_files/M00919.kk new file mode 100644 index 0000000..37e2fa4 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00919.kk @@ -0,0 +1,5 @@ +M00919_Ectoine_degradation.txt +K15783 +K15784 +K15785 +K15786 diff --git a/KEGG_MODULES/kk_files/M00921.kk b/KEGG_MODULES/kk_files/M00921.kk new file mode 100644 index 0000000..2d4cdb4 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00921.kk @@ -0,0 +1,5 @@ +M00921_Cyclooctatin_biosynthesis.txt +K13787 +K18686 +K22997 +K22998 diff --git a/KEGG_MODULES/kk_files/M00922.kk b/KEGG_MODULES/kk_files/M00922.kk new file mode 100644 index 0000000..63b8b73 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00922.kk @@ -0,0 +1,4 @@ +M00922_CMP-Neu5Ac_biosynthesis.txt +K24257 +K01654 +K00983 diff --git a/KEGG_MODULES/kk_files/M00923.kk b/KEGG_MODULES/kk_files/M00923.kk new file mode 100644 index 0000000..2a6fbeb --- /dev/null +++ b/KEGG_MODULES/kk_files/M00923.kk @@ -0,0 +1,5 @@ +M00923_UDP-L-FucNAm_biosynthesis.txt +K15894 +K19068 +K24258 +K24259 diff --git a/KEGG_MODULES/kk_files/M00924.kk b/KEGG_MODULES/kk_files/M00924.kk new file mode 100644 index 0000000..c60a9e1 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00924.kk @@ -0,0 +1,14 @@ +M00924_Cobalamin_biosynthesis_anaerobicc-diamide.txt +K02302, K02303, K13542 +K02302, K02304, K24866 +K02190, K03795, K22011 +K03394 +K05934, K13541, K21479 +K05936 +K02189, K13541 +K02188 +K05895 +K02191, K00595 +K03399, K00595 +K06042 +K02224 diff --git a/KEGG_MODULES/kk_files/M00925.kk b/KEGG_MODULES/kk_files/M00925.kk new file mode 100644 index 0000000..3c78067 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00925.kk @@ -0,0 +1,14 @@ +M00925_Cobalamin_biosynthesis_aerobicc-diamide.txt +K02303, K13542 +K03394, K13540 +K02229 +K05934, K13540, K13541 +K05936 +K02228 +K05895 +K00595 +K06042 +K02224 +K02230, K09882, K09883 +COMPLEXES_LIST +K02230+K09882+K09883 diff --git a/KEGG_MODULES/kk_files/M00926.kk b/KEGG_MODULES/kk_files/M00926.kk new file mode 100644 index 0000000..62734b0 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00926.kk @@ -0,0 +1,10 @@ +M00926_Heme_biosynthesis_bacteria.txt +K02492 +K01845 +K01698 +K01749 +K01719, K13542 +K01599 +K00231 +K01772 +K00435 diff --git a/KEGG_MODULES/kk_files/M00927.kk b/KEGG_MODULES/kk_files/M00927.kk new file mode 100644 index 0000000..e50533e --- /dev/null +++ b/KEGG_MODULES/kk_files/M00927.kk @@ -0,0 +1,5 @@ +M00927_Gibberellin_A12_biosynthesis.txt +K04120 +K04121 +K04122 +K04123 diff --git a/KEGG_MODULES/kk_files/M00928.kk b/KEGG_MODULES/kk_files/M00928.kk new file mode 100644 index 0000000..85e6f7c --- /dev/null +++ b/KEGG_MODULES/kk_files/M00928.kk @@ -0,0 +1,3 @@ +M00928_Gibberellin_A4--A1_biosynthesis.txt +K05282 +K04124 diff --git a/KEGG_MODULES/kk_files/M00929.kk b/KEGG_MODULES/kk_files/M00929.kk new file mode 100644 index 0000000..7143316 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00929.kk @@ -0,0 +1,6 @@ +M00929_Gibberellin_A1_biosynthesis.txt +K20657 +K21292 +K12917 +K12918 +K12919 diff --git a/KEGG_MODULES/kk_files/M00930.kk b/KEGG_MODULES/kk_files/M00930.kk new file mode 100644 index 0000000..e8de60d --- /dev/null +++ b/KEGG_MODULES/kk_files/M00930.kk @@ -0,0 +1,7 @@ +M00930_Menaquinone_biosynthesis_futalosine_pathway.txt +K11782 +K18285 +K18286, K20810 +K11783 +K11784 +K11785 diff --git a/KEGG_MODULES/kk_files/M00931.kk b/KEGG_MODULES/kk_files/M00931.kk new file mode 100644 index 0000000..faf29ac --- /dev/null +++ b/KEGG_MODULES/kk_files/M00931.kk @@ -0,0 +1,6 @@ +M00931_Menaquinone_biosynthesis_modified_futalosine_pathway.txt +K11782 +K18285 +K18284 +K11784 +K11785 diff --git a/KEGG_MODULES/kk_files/M00932.kk b/KEGG_MODULES/kk_files/M00932.kk new file mode 100644 index 0000000..85530f4 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00932.kk @@ -0,0 +1,11 @@ +M00932_Phylloquinone_biosynthesis.txt +K02552, K14759 +K02551, K14759 +K08680, K14759 +K02549, K14759 +K01911, K14760 +K01661 +K19222, K12073 +K23094 +K17872 +K23095 diff --git a/KEGG_MODULES/kk_files/M00933.kk b/KEGG_MODULES/kk_files/M00933.kk new file mode 100644 index 0000000..7ceac65 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00933.kk @@ -0,0 +1,3 @@ +M00933_Plastoquinone_biosynthesis.txt +K12501 +K12502 diff --git a/KEGG_MODULES/kk_files/M00934.kk b/KEGG_MODULES/kk_files/M00934.kk new file mode 100644 index 0000000..80f21df --- /dev/null +++ b/KEGG_MODULES/kk_files/M00934.kk @@ -0,0 +1,10 @@ +M00934_Mycinamicin_biosynthesis.txt +K24528, K24559, K24560, K24561, K24562 +K24529 +K24292, K24530 +K24531 +K21540 +K21539 +K24390 +COMPLEXES_LIST +K24528+K24559+K24560+K24561+K24562, K24292+K24530 diff --git a/KEGG_MODULES/kk_files/M00935.kk b/KEGG_MODULES/kk_files/M00935.kk new file mode 100644 index 0000000..b85b087 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00935.kk @@ -0,0 +1,10 @@ +M00935_Methanofuran_biosynthesis.txt +/ +K09733 +K19793 +K07144 +/ +K18933 +K06914 +/ +K07072 diff --git a/KEGG_MODULES/kk_files/M00936.kk b/KEGG_MODULES/kk_files/M00936.kk new file mode 100644 index 0000000..20a79ab --- /dev/null +++ b/KEGG_MODULES/kk_files/M00936.kk @@ -0,0 +1,5 @@ +M00936_Melatonin_biosynthesis_plants.txt +K01593 +K24541 +K22450 +K22588, K13066 diff --git a/KEGG_MODULES/kk_files/M00937.kk b/KEGG_MODULES/kk_files/M00937.kk new file mode 100644 index 0000000..5321765 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00937.kk @@ -0,0 +1,17 @@ +M00937_Aflatoxin_biosynthesis.txt +K15316 +K17643 +K17644 +K17645 +K17652 +K17646 +K24440 +K24855 +K17648 +K24439 +K24856, K24438, K24857, K24858 +K17649 +K17650 +K17651 +COMPLEXES_LIST +K24856+K24438+K24857+K24858 diff --git a/KEGG_MODULES/kk_files/M00938.kk b/KEGG_MODULES/kk_files/M00938.kk new file mode 100644 index 0000000..a57db54 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00938.kk @@ -0,0 +1,8 @@ +M00938_Pyrimidine_deoxyribonucleotide_biosynthesis.txt +K00525, K00526, K10807, K10808 +K00940, K18533 +K01520 +K00560, K13998, K03465 +K00943 +COMPLEXES_LIST +K00525+K00526, K10807+K10808 diff --git a/KEGG_MODULES/kk_files/M00939.kk b/KEGG_MODULES/kk_files/M00939.kk new file mode 100644 index 0000000..72af42e --- /dev/null +++ b/KEGG_MODULES/kk_files/M00939.kk @@ -0,0 +1,8 @@ +M00939_Pyrimidine_degradation.txt +K09018, K09024 +K09020 +K09021 +K09023 +K09019, K16066 +COMPLEXES_LIST +K09018+K09024 diff --git a/KEGG_MODULES/kk_files/M00940.kk b/KEGG_MODULES/kk_files/M00940.kk new file mode 100644 index 0000000..26dc4f5 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00940.kk @@ -0,0 +1,5 @@ +M00940_Flavanone_biosynthesis.txt +K00660, K08243 +K01859 +COMPLEXES_LIST +K00660+K08243 diff --git a/KEGG_MODULES/kk_files/M00941.kk b/KEGG_MODULES/kk_files/M00941.kk new file mode 100644 index 0000000..153a712 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00941.kk @@ -0,0 +1,3 @@ +M00941_Isoflavone_biosynthesis.txt +K13257 +K13258 diff --git a/KEGG_MODULES/kk_files/M00942.kk b/KEGG_MODULES/kk_files/M00942.kk new file mode 100644 index 0000000..234183b --- /dev/null +++ b/KEGG_MODULES/kk_files/M00942.kk @@ -0,0 +1,6 @@ +M00942_Pterocarpan_biosynthesis.txt +K13259 +K13260 +K05281 +K13265 +K25075 diff --git a/KEGG_MODULES/kk_files/M00943.kk b/KEGG_MODULES/kk_files/M00943.kk new file mode 100644 index 0000000..7c1e369 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00943.kk @@ -0,0 +1,6 @@ +M00943_Reticuline_biosynthesis.txt +K13382 +K13383 +K13384 +K13385 +K13386 diff --git a/KEGG_MODULES/kk_files/M00944.kk b/KEGG_MODULES/kk_files/M00944.kk new file mode 100644 index 0000000..62decca --- /dev/null +++ b/KEGG_MODULES/kk_files/M00944.kk @@ -0,0 +1,9 @@ +M00944_Morphine_biosynthesis.txt +K22093 +K13391 +K13392 +K13393 +K01742 +K14975 +K14976 +K13394 diff --git a/KEGG_MODULES/kk_files/M00945.kk b/KEGG_MODULES/kk_files/M00945.kk new file mode 100644 index 0000000..da19316 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00945.kk @@ -0,0 +1,8 @@ +M00945_Sanguinarine_biosynthesis.txt +K00307 +K21070 +K13395 +K13396 +K21692 +K21693 +K22089 diff --git a/KEGG_MODULES/kk_files/M00946.kk b/KEGG_MODULES/kk_files/M00946.kk new file mode 100644 index 0000000..a676568 --- /dev/null +++ b/KEGG_MODULES/kk_files/M00946.kk @@ -0,0 +1,14 @@ +M00946_Noscapine_biosynthesis.txt +K00307 +K13397 +K13395 +K13396 +K20621 +K22094 +K22095 +K22096 +K23157, K23158 +K22097 +K22098 +COMPLEXES_LIST +K23157+K23158 diff --git a/KEGG_MODULES/kk_files/M00947.kk b/KEGG_MODULES/kk_files/M00947.kk new file mode 100644 index 0000000..89bdcbb --- /dev/null +++ b/KEGG_MODULES/kk_files/M00947.kk @@ -0,0 +1,3 @@ +M00947_D-Arginine_racemization.txt +K19746 +K19744 diff --git a/KEGG_MODULES/kk_files/M00948.kk b/KEGG_MODULES/kk_files/M00948.kk new file mode 100644 index 0000000..9dc728f --- /dev/null +++ b/KEGG_MODULES/kk_files/M00948.kk @@ -0,0 +1,7 @@ +M00948_Hydroxyproline_degradation.txt +K12658 +K21060, K22549, K21061, K22550 +K21062 +K13877 +COMPLEXES_LIST +K22549+K21061+K22550 diff --git a/KEGG_MODULES/kk_files/M00949.kk b/KEGG_MODULES/kk_files/M00949.kk new file mode 100644 index 0000000..997d9fc --- /dev/null +++ b/KEGG_MODULES/kk_files/M00949.kk @@ -0,0 +1,4 @@ +M00949_Staphylopine_biosynthesis.txt +K01780 +K23120 +K23122 diff --git a/KEGG_MODULES/kk_files/M00950.kk b/KEGG_MODULES/kk_files/M00950.kk new file mode 100644 index 0000000..e59046c --- /dev/null +++ b/KEGG_MODULES/kk_files/M00950.kk @@ -0,0 +1,5 @@ +M00950_Biotin_biosynthesis_BioU_pathway.txt +K00652 +K25570 +K01935 +K01012 diff --git a/KEGG_MODULES/stats/KEGG_modules_stats_2020-12-17.txt b/KEGG_MODULES/stats/KEGG_modules_stats_2020-12-17.txt deleted file mode 100644 index fb8101a..0000000 --- a/KEGG_MODULES/stats/KEGG_modules_stats_2020-12-17.txt +++ /dev/null @@ -1,6 +0,0 @@ -2020-12-17 12:49:08.481930 -KEGG Modules Now 443 -Pathway Modules 333 -Complex Modules 26 -Signature Modules 49 -Not annotated Modules 35 diff --git a/KEGG_MODULES/stats/all_modules.txt b/KEGG_MODULES/stats/all_modules.txt deleted file mode 100644 index 607a529..0000000 --- a/KEGG_MODULES/stats/all_modules.txt +++ /dev/null @@ -1,408 +0,0 @@ -M00001 -M00002 -M00003 -M00004 -M00005 -M00006 -M00007 -M00008 -M00009 -M00010 -M00011 -M00012 -M00013 -M00014 -M00015 -M00016 -M00017 -M00018 -M00019 -M00020 -M00021 -M00022 -M00023 -M00024 -M00025 -M00026 -M00027 -M00028 -M00029 -M00030 -M00031 -M00032 -M00033 -M00034 -M00035 -M00036 -M00037 -M00038 -M00039 -M00040 -M00042 -M00043 -M00044 -M00045 -M00046 -M00047 -M00048 -M00049 -M00050 -M00051 -M00052 -M00053 -M00055 -M00056 -M00057 -M00058 -M00059 -M00060 -M00061 -M00063 -M00064 -M00065 -M00066 -M00067 -M00068 -M00069 -M00070 -M00071 -M00072 -M00073 -M00074 -M00075 -M00076 -M00077 -M00078 -M00079 -M00081 -M00082 -M00083 -M00085 -M00086 -M00087 -M00088 -M00089 -M00090 -M00091 -M00092 -M00093 -M00094 -M00095 -M00096 -M00097 -M00098 -M00099 -M00100 -M00101 -M00102 -M00103 -M00104 -M00106 -M00107 -M00108 -M00109 -M00110 -M00112 -M00113 -M00114 -M00115 -M00116 -M00117 -M00118 -M00119 -M00120 -M00121 -M00122 -M00123 -M00124 -M00125 -M00126 -M00127 -M00128 -M00129 -M00130 -M00131 -M00132 -M00133 -M00134 -M00135 -M00136 -M00137 -M00138 -M00140 -M00141 -M00142 -M00143 -M00144 -M00145 -M00146 -M00147 -M00148 -M00149 -M00150 -M00151 -M00152 -M00153 -M00154 -M00155 -M00156 -M00157 -M00158 -M00159 -M00160 -M00161 -M00162 -M00163 -M00165 -M00166 -M00167 -M00168 -M00169 -M00170 -M00171 -M00172 -M00173 -M00174 -M00175 -M00176 -M00307 -M00308 -M00309 -M00338 -M00344 -M00345 -M00346 -M00356 -M00357 -M00358 -M00363 -M00364 -M00365 -M00366 -M00367 -M00368 -M00369 -M00370 -M00371 -M00372 -M00373 -M00374 -M00375 -M00376 -M00377 -M00378 -M00415 -M00416 -M00417 -M00418 -M00419 -M00422 -M00432 -M00433 -M00525 -M00526 -M00527 -M00528 -M00529 -M00530 -M00531 -M00532 -M00533 -M00534 -M00535 -M00537 -M00538 -M00539 -M00540 -M00541 -M00542 -M00543 -M00544 -M00545 -M00546 -M00547 -M00548 -M00549 -M00550 -M00551 -M00552 -M00554 -M00555 -M00563 -M00564 -M00565 -M00567 -M00568 -M00569 -M00570 -M00572 -M00573 -M00574 -M00575 -M00576 -M00577 -M00579 -M00580 -M00595 -M00596 -M00597 -M00598 -M00608 -M00609 -M00611 -M00612 -M00613 -M00614 -M00615 -M00616 -M00617 -M00618 -M00620 -M00622 -M00623 -M00624 -M00625 -M00627 -M00630 -M00631 -M00632 -M00633 -M00636 -M00637 -M00638 -M00639 -M00641 -M00642 -M00643 -M00649 -M00651 -M00652 -M00660 -M00661 -M00664 -M00672 -M00673 -M00674 -M00675 -M00696 -M00697 -M00698 -M00700 -M00702 -M00704 -M00705 -M00714 -M00718 -M00725 -M00726 -M00730 -M00736 -M00740 -M00741 -M00744 -M00745 -M00746 -M00761 -M00763 -M00769 -M00773 -M00774 -M00775 -M00776 -M00777 -M00778 -M00779 -M00780 -M00781 -M00782 -M00783 -M00784 -M00785 -M00786 -M00787 -M00788 -M00789 -M00790 -M00793 -M00794 -M00795 -M00796 -M00797 -M00798 -M00799 -M00800 -M00801 -M00802 -M00803 -M00804 -M00805 -M00808 -M00810 -M00811 -M00814 -M00815 -M00819 -M00823 -M00824 -M00825 -M00826 -M00827 -M00828 -M00829 -M00830 -M00831 -M00832 -M00833 -M00834 -M00835 -M00836 -M00837 -M00838 -M00840 -M00841 -M00842 -M00843 -M00844 -M00845 -M00846 -M00847 -M00848 -M00849 -M00850 -M00851 -M00852 -M00853 -M00854 -M00855 -M00856 -M00857 -M00859 -M00860 -M00861 -M00862 -M00866 -M00867 -M00868 -M00872 -M00873 -M00874 -M00875 -M00876 -M00877 -M00878 -M00879 -M00880 -M00889 -M00890 -M00891 -M00892 -M00893 -M00894 -M00900 -M00901 -M00902 -M00903 -M00904 -M00905 -M00906 -M00909 diff --git a/KEGG_MODULES/stats/total/ko00002.keg b/KEGG_MODULES/stats/total/ko00002.keg deleted file mode 100644 index 02f9271..0000000 --- a/KEGG_MODULES/stats/total/ko00002.keg +++ /dev/null @@ -1,506 +0,0 @@ -+D Module -! -APathway modules -B Carbohydrate metabolism -C Central carbohydrate metabolism -D M00001 Glycolysis (Embden-Meyerhof pathway), glucose => pyruvate [PATH:map00010 map01200 map01100] -D M00002 Glycolysis, core module involving three-carbon compounds [PATH:map00010 map01200 map01230 map01100] -D M00003 Gluconeogenesis, oxaloacetate => fructose-6P [PATH:map00010 map00020 map01100] -D M00307 Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:map00010 map00020 map00620 map01200 map01100] -D M00009 Citrate cycle (TCA cycle, Krebs cycle) [PATH:map00020 map01200 map01100] -D M00010 Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:map00020 map01200 map01210 map01230 map01100] -D M00011 Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:map00020 map01200 map01100] -D M00004 Pentose phosphate pathway (Pentose phosphate cycle) [PATH:map00030 map01200 map01100 map01120] -D M00006 Pentose phosphate pathway, oxidative phase, glucose 6P => ribulose 5P [PATH:map00030 map01200 map01100 map01120] -D M00007 Pentose phosphate pathway, non-oxidative phase, fructose 6P => ribose 5P [PATH:map00030 map01200 map01230 map01100 map01120] -D M00580 Pentose phosphate pathway, archaea, fructose 6P => ribose 5P [PATH:map00030 map01200 map01230 map01100 map01120] -D M00005 PRPP biosynthesis, ribose 5P => PRPP [PATH:map00030 map00230 map01200 map01230 map01100] -D M00008 Entner-Doudoroff pathway, glucose-6P => glyceraldehyde-3P + pyruvate [PATH:map00030 map01200 map01100 map01120] -D M00308 Semi-phosphorylative Entner-Doudoroff pathway, gluconate => glycerate-3P [PATH:map00030 map01200 map01100 map01120] -D M00633 Semi-phosphorylative Entner-Doudoroff pathway, gluconate/galactonate => glycerate-3P [PATH:map00030 map00052 map01200 map01100] -D M00309 Non-phosphorylative Entner-Doudoroff pathway, gluconate/galactonate => glycerate [PATH:map00030 map00052 map01200 map01100 map01120] -C Other carbohydrate metabolism -D M00014 Glucuronate pathway (uronate pathway) [PATH:map00040 map01100] -D M00630 D-Galacturonate degradation (fungi), D-galacturonate => glycerol [PATH:map00040 map01100] -D M00631 D-Galacturonate degradation (bacteria), D-galacturonate => pyruvate + D-glyceraldehyde 3P [PATH:map00040 map00030 map01100] -D M00061 D-Glucuronate degradation, D-glucuronate => pyruvate + D-glyceraldehyde 3P [PATH:map00040 map00030 map01100] -D M00081 Pectin degradation [PATH:map00040 map01100] -D M00632 Galactose degradation, Leloir pathway, galactose => alpha-D-glucose-1P [PATH:map00052 map01100] -D M00552 D-galactonate degradation, De Ley-Doudoroff pathway, D-galactonate => glycerate-3P [PATH:map00052 map01100] -D M00129 Ascorbate biosynthesis, animals, glucose-1P => ascorbate [PATH:map00040 map00053 map01240 map01100] -D M00114 Ascorbate biosynthesis, plants, fructose-6P => ascorbate [PATH:map00051 map00053 map01240 map01100 map01110] -D M00550 Ascorbate degradation, ascorbate => D-xylulose-5P [PATH:map00053 map01100 map01120] -D M00854 Glycogen biosynthesis, glucose-1P => glycogen/starch [PATH:map00500 map01100] -D M00855 Glycogen degradation, glycogen => glucose-6P [PATH:map00500 map01100] -D M00565 Trehalose biosynthesis, D-glucose 1P => trehalose [PATH:map00500 map01100 map01110] -D M00549 Nucleotide sugar biosynthesis, glucose => UDP-glucose [PATH:map00520 map01100] -D M00554 Nucleotide sugar biosynthesis, galactose => UDP-galactose [PATH:map00520 map00052 map01100] -D M00892 UDP-N-acetyl-D-glucosamine biosynthesis, eukaryotes, glucose => UDP-GlcNAc [PATH:map00520 map01100] -D M00909 UDP-N-acetyl-D-glucosamine biosynthesis, prokaryotes, glucose => UDP-GlcNAc [PATH:map00520 map01100] -D M00761 Undecaprenylphosphate alpha-L-Ara4N biosynthesis, UDP-GlcA => undecaprenyl phosphate alpha-L-Ara4N [PATH:map00520 map01100] -D M00012 Glyoxylate cycle [PATH:map00630 map01200 map01100 map01110] -D M00373 Ethylmalonyl pathway [PATH:map00630 map01200 map01100 map01120] -D M00740 Methylaspartate cycle [PATH:map00020 map00250 map00630 map01200 map01100 map01120] -D M00532 Photorespiration [PATH:map00630 map01200 map01100 map01110] -D M00013 Malonate semialdehyde pathway, propanoyl-CoA => acetyl-CoA [PATH:map00410 map00640 map01200 map01100] -D M00741 Propanoyl-CoA metabolism, propanoyl-CoA => succinyl-CoA [PATH:map00280 map00630 map00640 map01200 map01100] -D M00130 Inositol phosphate metabolism, PI=> PIP2 => Ins(1,4,5)P3 => Ins(1,3,4,5)P4 [PATH:map00562 map01100] -D M00131 Inositol phosphate metabolism, Ins(1,3,4,5)P4 => Ins(1,3,4)P3 => myo-inositol [PATH:map00562 map01100] -D M00132 Inositol phosphate metabolism, Ins(1,3,4)P3 => phytate [PATH:map00562 map01100] -B Energy metabolism -C Carbon fixation -D M00165 Reductive pentose phosphate cycle (Calvin cycle) [PATH:map00710 map01200 map01100 map01120] -D M00166 Reductive pentose phosphate cycle, ribulose-5P => glyceraldehyde-3P [PATH:map00710 map01200 map01100 map01120] -D M00167 Reductive pentose phosphate cycle, glyceraldehyde-3P => ribulose-5P [PATH:map00710 map01200 map01100 map01120] -D M00168 CAM (Crassulacean acid metabolism), dark [PATH:map00620 map00710 map01200 map01100 map01120] -D M00169 CAM (Crassulacean acid metabolism), light [PATH:map00620 map00710 map01200 map01100 map01120] -D M00172 C4-dicarboxylic acid cycle, NADP - malic enzyme type [PATH:map00620 map00710 map01200 map01100 map01120] -D M00171 C4-dicarboxylic acid cycle, NAD - malic enzyme type [PATH:map00710 map01200 map01100 map01120] -D M00170 C4-dicarboxylic acid cycle, phosphoenolpyruvate carboxykinase type [PATH:map00710 map01200 map01100 map01120] -D M00173 Reductive citrate cycle (Arnon-Buchanan cycle) [PATH:map00720 map01200 map01100 map01120] -D M00376 3-Hydroxypropionate bi-cycle [PATH:map00720 map01200 map01100 map01120] -D M00375 Hydroxypropionate-hydroxybutylate cycle [PATH:map00720 map01200 map01100 map01120] -D M00374 Dicarboxylate-hydroxybutyrate cycle [PATH:map00720 map01200 map01100 map01120] -D M00377 Reductive acetyl-CoA pathway (Wood-Ljungdahl pathway) [PATH:map00720 map01200 map01100 map01120] -D M00579 Phosphate acetyltransferase-acetate kinase pathway, acetyl-CoA => acetate [PATH:map00430 map00620 map00720 map01200 map01100 map01120] -D M00620 Incomplete reductive citrate cycle, acetyl-CoA => oxoglutarate [PATH:map00720 map01200 map01100 map01120] -C Methane metabolism -D M00567 Methanogenesis, CO2 => methane [PATH:map00680 map01200 map01100 map01120] -D M00357 Methanogenesis, acetate => methane [PATH:map00680 map01200 map01100 map01120] -D M00356 Methanogenesis, methanol => methane [PATH:map00680 map01200 map01100 map01120] -D M00563 Methanogenesis, methylamine/dimethylamine/trimethylamine => methane [PATH:map00680 map01200 map01100 map01120] -D M00358 Coenzyme M biosynthesis [PATH:map00680 map01240 map01100 map01120] -D M00608 2-Oxocarboxylic acid chain extension, 2-oxoglutarate => 2-oxoadipate => 2-oxopimelate => 2-oxosuberate [PATH:map00300 map00680 map01210 map01230 map01240 map01100 map01120] -D M00174 Methane oxidation, methanotroph, methane => formaldehyde [PATH:map00680 map01200 map01220 map01100 map01120] -D M00346 Formaldehyde assimilation, serine pathway [PATH:map00680 map01200 map01100 map01120] -D M00345 Formaldehyde assimilation, ribulose monophosphate pathway [PATH:map00030 map00680 map01200 map01230 map01100 map01120] -D M00344 Formaldehyde assimilation, xylulose monophosphate pathway [PATH:map00680 map01200 map01100 map01120] -D M00378 F420 biosynthesis [PATH:map00680 map01240 map01100 map01120] -D M00935 Methanofuran biosynthesis [PATH:map00680 map01240 map01100] -D M00422 Acetyl-CoA pathway, CO2 => acetyl-CoA [PATH:map00680 map01200 map01100 map01120] -C Nitrogen metabolism -D M00175 Nitrogen fixation, nitrogen => ammonia [PATH:map00910 map01100 map01120] -D M00531 Assimilatory nitrate reduction, nitrate => ammonia [PATH:map00910 map01100 map01120] -D M00530 Dissimilatory nitrate reduction, nitrate => ammonia [PATH:map00910 map01100 map01120] -D M00529 Denitrification, nitrate => nitrogen [PATH:map00910 map01100 map01120] -D M00528 Nitrification, ammonia => nitrite [PATH:map00910 map01100 map01120] -D M00804 Complete nitrification, comammox, ammonia => nitrite => nitrate [PATH:map00910 map01100 map01120] -C Sulfur metabolism -D M00176 Assimilatory sulfate reduction, sulfate => H2S [PATH:map00920 map01100 map01120] -D M00596 Dissimilatory sulfate reduction, sulfate => H2S [PATH:map00920 map01100 map01120] -D M00595 Thiosulfate oxidation by SOX complex, thiosulfate => sulfate [PATH:map00920 map01100 map01120] -C Photosynthesis -D M00161 Photosystem II [PATH:map00195] [BR:ko00194] -D M00163 Photosystem I [PATH:map00195] [BR:ko00194] -D M00597 Anoxygenic photosystem II [BR:ko00194] -D M00598 Anoxygenic photosystem I [BR:ko00194] -C ATP synthesis -D M00144 NADH:quinone oxidoreductase, prokaryotes [PATH:map00190] -D M00145 NAD(P)H:quinone oxidoreductase, chloroplasts and cyanobacteria [PATH:map00190] -D M00142 NADH:ubiquinone oxidoreductase, mitochondria [PATH:map00190] -D M00143 NADH dehydrogenase (ubiquinone) Fe-S protein/flavoprotein complex, mitochondria [PATH:map00190] -D M00146 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex [PATH:map00190] -D M00147 NADH dehydrogenase (ubiquinone) 1 beta subcomplex [PATH:map00190] -D M00149 Succinate dehydrogenase, prokaryotes [PATH:map00190] -D M00150 Fumarate reductase, prokaryotes [PATH:map00190] -D M00148 Succinate dehydrogenase (ubiquinone) [PATH:map00190] -D M00162 Cytochrome b6f complex [PATH:map00195] -D M00151 Cytochrome bc1 complex respiratory unit [PATH:map00190] -D M00152 Cytochrome bc1 complex [PATH:map00190] -D M00154 Cytochrome c oxidase [PATH:map00190] -D M00155 Cytochrome c oxidase, prokaryotes [PATH:map00190] -D M00153 Cytochrome bd ubiquinol oxidase [PATH:map00190] -D M00417 Cytochrome o ubiquinol oxidase [PATH:map00190] -D M00416 Cytochrome aa3-600 menaquinol oxidase [PATH:map00190] -D M00156 Cytochrome c oxidase, cbb3-type [PATH:map00190] -D M00157 F-type ATPase, prokaryotes and chloroplasts [PATH:map00190 map00195] -D M00158 F-type ATPase, eukaryotes [PATH:map00190] -D M00159 V-type ATPase, prokaryotes [PATH:map00190] -D M00160 V-type ATPase, eukaryotes [PATH:map00190] -B Lipid metabolism -C Fatty acid metabolism -D M00082 Fatty acid biosynthesis, initiation [PATH:map00061 map01212 map01100] -D M00083 Fatty acid biosynthesis, elongation [PATH:map00061 map01212 map01100] -D M00873 Fatty acid biosynthesis in mitochondria, animals [PATH:map00061 map01212 map01100] -D M00874 Fatty acid biosynthesis in mitochondria, fungi [PATH:map00061 map01212 map01100] -D M00085 Fatty acid elongation in mitochondria [PATH:map00062 map01212 map01100] -D M00415 Fatty acid elongation in endoplasmic reticulum [PATH:map00062 map01040 map01212 map01100] -D M00086 beta-Oxidation, acyl-CoA synthesis [PATH:map00061 map00071 map01212 map01100] -D M00087 beta-Oxidation [PATH:map00071 map01212 map01100] -D M00861 beta-Oxidation, peroxisome, VLCFA [PATH:map01040 map01212 map01100] -C Sterol biosynthesis -D M00101 Cholesterol biosynthesis, squalene 2,3-epoxide => cholesterol [PATH:map00100 map01100] -D M00102 Ergocalciferol biosynthesis, squalene 2,3-epoxide => ergosterol/ergocalciferol [PATH:map00100 map01100 map01110] -D M00917 Phytosterol biosynthesis, squalene 2,3-epoxide => campesterol/sitosterol [PATH:map00100 map01100 map01110] -D M00103 Cholecalciferol biosynthesis [PATH:map00100 map01100] -D M00104 Bile acid biosynthesis, cholesterol => cholate/chenodeoxycholate [PATH:map00120 map01100] -D M00106 Conjugated bile acid biosynthesis, cholate => taurocholate/glycocholate [PATH:map00120 map01100] -D M00862 beta-Oxidation, peroxisome, tri/dihydroxycholestanoyl-CoA => choloyl/chenodeoxycholoyl-CoA [PATH:map00120 map01100] -D M00107 Steroid hormone biosynthesis, cholesterol => prognenolone => progesterone [PATH:map00140 map01100] -D M00108 C21-Steroid hormone biosynthesis, progesterone => corticosterone/aldosterone [PATH:map00140 map01100] -D M00109 C21-Steroid hormone biosynthesis, progesterone => cortisol/cortisone [PATH:map00140 map01100] -D M00110 C19/C18-Steroid hormone biosynthesis, pregnenolone => androstenedione => estrone [PATH:map00140 map01100] -C Lipid metabolism -D M00088 Ketone body biosynthesis, acetyl-CoA => acetoacetate/3-hydroxybutyrate/acetone [PATH:map00072 map01100] -D M00089 Triacylglycerol biosynthesis [PATH:map00561 map01100] -D M00098 Acylglycerol degradation [PATH:map00561 map01100] -D M00090 Phosphatidylcholine (PC) biosynthesis, choline => PC [PATH:map00564 map01100] -D M00091 Phosphatidylcholine (PC) biosynthesis, PE => PC [PATH:map00564 map01100] -D M00092 Phosphatidylethanolamine (PE) biosynthesis, ethanolamine => PE [PATH:map00564 map01100] -D M00093 Phosphatidylethanolamine (PE) biosynthesis, PA => PS => PE [PATH:map00564 map01100] -D M00094 Ceramide biosynthesis [PATH:map00600 map01100] -D M00066 Lactosylceramide biosynthesis [PATH:map00600 map01100] -D M00067 Sulfoglycolipids biosynthesis, ceramide/1-alkyl-2-acylglycerol => sulfatide/seminolipid [PATH:map00600 map00565 map01100] -D M00099 Sphingosine biosynthesis [PATH:map00600 map01100] -D M00100 Sphingosine degradation [PATH:map00600 map01100] -D M00113 Jasmonic acid biosynthesis [PATH:map00592 map01100 map01110] -B Nucleotide metabolism -C Purine metabolism -D M00048 Inosine monophosphate biosynthesis, PRPP + glutamine => IMP [PATH:map00230 map01100] -D M00049 Adenine ribonucleotide biosynthesis, IMP => ADP,ATP [PATH:map00230 map01240 map01100] -D M00050 Guanine ribonucleotide biosynthesis IMP => GDP,GTP [PATH:map00230 map01100] -D M00546 Purine degradation, xanthine => urea [PATH:map00230 map01100] -C Pyrimidine metabolism -D M00051 Uridine monophosphate biosynthesis, glutamine (+ PRPP) => UMP [PATH:map00240 map01240 map01100] -D M00052 Pyrimidine ribonucleotide biosynthesis, UMP => UDP/UTP,CDP/CTP [PATH:map00240 map01240 map01100] -D M00053 Pyrimidine deoxyribonuleotide biosynthesis, CDP/CTP => dCDP/dCTP,dTDP/dTTP [PATH:map00240 map01100] -D M00046 Pyrimidine degradation, uracil => beta-alanine, thymine => 3-aminoisobutanoate [PATH:map00240 map01100] -B Amino acid metabolism -C Serine and threonine metabolism -D M00020 Serine biosynthesis, glycerate-3P => serine [PATH:map00260 map00680 map01200 map01230 map01100] -D M00018 Threonine biosynthesis, aspartate => homoserine => threonine [PATH:map00260 map01230 map01100 map01110] -D M00555 Betaine biosynthesis, choline => betaine [PATH:map00260 map01100] -D M00033 Ectoine biosynthesis, aspartate => ectoine [PATH:map00260 map01210 map01230 map01100 map01120] -D M00919 Ectoine degradation, ectoine => aspartate [PATH:map00260 map01100 map01120] -C Cysteine and methionine metabolism -D M00021 Cysteine biosynthesis, serine => cysteine [PATH:map00270 map00920 map01200 map01230 map01100 map01110] -D M00338 Cysteine biosynthesis, homocysteine + serine => cysteine [PATH:map00260 map00270 map01230 map01100] -D M00609 Cysteine biosynthesis, methionine => cysteine [PATH:map00270 map01230 map01100] -D M00017 Methionine biosynthesis, apartate => homoserine => methionine [PATH:map00270 map01230 map01100] -D M00034 Methionine salvage pathway [PATH:map00270 map01100] -D M00035 Methionine degradation [PATH:map00270 map01100] -D M00368 Ethylene biosynthesis, methionine => ethylene [PATH:map00270 map01100 map01110] -C Branched-chain amino acid metabolism -D M00019 Valine/isoleucine biosynthesis, pyruvate => valine / 2-oxobutanoate => isoleucine [PATH:map00290 map00770 map01210 map01230 map01100 map01110] -D M00535 Isoleucine biosynthesis, pyruvate => 2-oxobutanoate [PATH:map00290 map00660 map01210 map01230 map01100] -D M00570 Isoleucine biosynthesis, threonine => 2-oxobutanoate => isoleucine [PATH:map00290 map01230 map01100] -D M00432 Leucine biosynthesis, 2-oxoisovalerate => 2-oxoisocaproate [PATH:map00290 map01210 map01230 map01100 map01110] -D M00036 Leucine degradation, leucine => acetoacetate + acetyl-CoA [PATH:map00280 map01100] -C Lysine metabolism -D M00016 Lysine biosynthesis, succinyl-DAP pathway, aspartate => lysine [PATH:map00300 map01230 map01100] -D M00525 Lysine biosynthesis, acetyl-DAP pathway, aspartate => lysine [PATH:map00300 map01230 map01100] -D M00526 Lysine biosynthesis, DAP dehydrogenase pathway, aspartate => lysine [PATH:map00300 map01230 map01100] -D M00527 Lysine biosynthesis, DAP aminotransferase pathway, aspartate => lysine [PATH:map00300 map01230 map01100 map01110] -D M00030 Lysine biosynthesis, AAA pathway, 2-oxoglutarate => 2-aminoadipate => lysine [PATH:map00300 map01230 map01100] -D M00433 Lysine biosynthesis, 2-oxoglutarate => 2-oxoadipate [PATH:map00300 map01210 map01230 map01100] -D M00031 Lysine biosynthesis, mediated by LysW, 2-aminoadipate => lysine [PATH:map00300 map01210 map01230 map01100] -D M00032 Lysine degradation, lysine => saccharopine => acetoacetyl-CoA [PATH:map00310 map01100] -C Arginine and proline metabolism -D M00028 Ornithine biosynthesis, glutamate => ornithine [PATH:map00220 map01210 map01230 map01100] -D M00763 Ornithine biosynthesis, mediated by LysW, glutamate => ornithine [PATH:map00220 map01210 map01230 map01100] -D M00844 Arginine biosynthesis, ornithine => arginine [PATH:map00220 map01230 map01100] -D M00845 Arginine biosynthesis, glutamate => acetylcitrulline => arginine [PATH:map00220 map01230 map01100] -D M00029 Urea cycle [PATH:map00220 map01230 map01100] -D M00015 Proline biosynthesis, glutamate => proline [PATH:map00330 map01230 map01100] -D M00047 Creatine pathway [PATH:map00330 map01100] -D M00879 Arginine succinyltransferase pathway, arginine => glutamate [PATH:map00330 map01100] -C Polyamine biosynthesis -D M00133 Polyamine biosynthesis, arginine => agmatine => putrescine => spermidine [PATH:map00330 map01100] -D M00134 Polyamine biosynthesis, arginine => ornithine => putrescine [PATH:map00330 map01100] -D M00135 GABA biosynthesis, eukaryotes, putrescine => GABA [PATH:map00330 map01100] -D M00136 GABA biosynthesis, prokaryotes, putrescine => GABA [PATH:map00330 map01100] -C Histidine metabolism -D M00026 Histidine biosynthesis, PRPP => histidine [PATH:map00340 map01230 map01100 map01110] -D M00045 Histidine degradation, histidine => N-formiminoglutamate => glutamate [PATH:map00340 map01100] -C Aromatic amino acid metabolism -D M00022 Shikimate pathway, phosphoenolpyruvate + erythrose-4P => chorismate [PATH:map00400 map01230 map01100 map01110] -D M00023 Tryptophan biosynthesis, chorismate => tryptophan [PATH:map00400 map01230 map01100 map01110] -D M00024 Phenylalanine biosynthesis, chorismate => phenylpyruvate => phenylalanine [PATH:map00400 map01230 map01100 map01110] -D M00910 Phenylalanine biosynthesis, chorismate => arogenate => phenylalanine [PATH:map00400 map01230 map01100 map01110] -D M00025 Tyrosine biosynthesis, chorismate => HPP => tyrosine [PATH:map00400 map01230 map01100] -D M00040 Tyrosine biosynthesis, chorismate => arogenate => tyrosine [PATH:map00400 map01230 map01100 map01110] -D M00042 Catecholamine biosynthesis, tyrosine => dopamine => noradrenaline => adrenaline [PATH:map00350 map01100] -D M00043 Thyroid hormone biosynthesis, tyrosine => triiodothyronine/thyroxine [PATH:map00350 map01100] -D M00044 Tyrosine degradation, tyrosine => homogentisate [PATH:map00350 map01100] -D M00533 Homoprotocatechuate degradation, homoprotocatechuate => 2-oxohept-3-enedioate [PATH:map00350 map01220 map01100 map01120] -D M00037 Melatonin biosynthesis, animals, tryptophan => serotonin => melatonin [PATH:map00380 map01100] -D M00936 Melatonin biosynthesis, plants, tryptophan => serotonin => melatonin [PATH:map00380 map01100 map01110] -D M00038 Tryptophan metabolism, tryptophan => kynurenine => 2-aminomuconate [PATH:map00380 map01100] -C Other amino acid metabolism -D M00027 GABA (gamma-Aminobutyrate) shunt [PATH:map00250 map00650 map01100] -D M00369 Cyanogenic glycoside biosynthesis, tyrosine => dhurrin [PATH:map00460 map01100 map01110] -D M00118 Glutathione biosynthesis, glutamate => glutathione [PATH:map00480 map01240 map01100] -B Glycan metabolism -C Glycan biosynthesis -D M00055 N-glycan precursor biosynthesis [PATH:map00510 map01100] -D M00072 N-glycosylation by oligosaccharyltransferase [PATH:map00510 map00513 map01100] -D M00073 N-glycan precursor trimming [PATH:map00510 map01100] -D M00074 N-glycan biosynthesis, high-mannose type [PATH:map00510 map00513 map01100] -D M00075 N-glycan biosynthesis, complex type [PATH:map00510 map01100] -D M00056 O-glycan biosynthesis, mucin type core [PATH:map00512 map01100] -D M00872 O-glycan biosynthesis, mannose type (core M3) [PATH:map00515 map01100] -D M00065 GPI-anchor biosynthesis, core oligosaccharide [PATH:map00563 map01100] -D M00070 Glycosphingolipid biosynthesis, lacto-series, LacCer => Lc4Cer [PATH:map00601 map01100] -D M00071 Glycosphingolipid biosynthesis, neolacto-series, LacCer => nLc4Cer [PATH:map00601 map01100] -D M00068 Glycosphingolipid biosynthesis, globo-series, LacCer => Gb4Cer [PATH:map00603 map01100] -D M00069 Glycosphingolipid biosynthesis, ganglio series, LacCer => GT3 [PATH:map00604 map01100] -C Glycosaminoglycan metabolism -D M00057 Glycosaminoglycan biosynthesis, linkage tetrasaccharide [PATH:map00532 map00534 map01100] -D M00058 Glycosaminoglycan biosynthesis, chondroitin sulfate backbone [PATH:map00532 map01100] -D M00059 Glycosaminoglycan biosynthesis, heparan sulfate backbone [PATH:map00534 map01100] -D M00076 Dermatan sulfate degradation [PATH:map00531 map01100] -D M00077 Chondroitin sulfate degradation [PATH:map00531 map01100] -D M00078 Heparan sulfate degradation [PATH:map00531 map01100] -D M00079 Keratan sulfate degradation [PATH:map00531 map01100] -C Lipopolysaccharide metabolism -D M00060 KDO2-lipid A biosynthesis, Raetz pathway, LpxL-LpxM type [PATH:map00540 map01100] -D M00866 KDO2-lipid A biosynthesis, Raetz pathway, non-LpxL-LpxM type [PATH:map00540 map01100] -D M00867 KDO2-lipid A modification pathway [PATH:map00540 map01100] -D M00063 CMP-KDO biosynthesis [PATH:map00540 map01100] -D M00064 ADP-L-glycero-D-manno-heptose biosynthesis [PATH:map00540 map01100] -D M00922 CMP-Neu5Ac biosynthesis [PATH:map00541 map01100] -D M00923 UDP-L-FucNAm biosynthesis [PATH:map00541 map01100] -B Metabolism of cofactors and vitamins -C Cofactor and vitamin metabolism -D M00127 Thiamine biosynthesis, prokaryotes, AIR (+ DXP/tyrosine) => TMP/TPP [PATH:map00730 map01240 map01100] -D M00895 Thiamine biosynthesis, prokaryotes, AIR (+ DXP/glycine) => TMP/TPP [PATH:map00730 map01240 map01100] -D M00896 Thiamine biosynthesis, archaea, AIR (+ NAD+) => TMP/TPP [PATH:map00730 map01240 map01100] -D M00897 Thiamine biosynthesis, plants, AIR (+ NAD+) => TMP/thiamine/TPP [PATH:map00730 map01240 map01100] -D M00898 Thiamine biosynthesis, pyridoxal-5P => TMP/thiamine/TPP [PATH:map00730 map01240 map01100] -D M00899 Thiamine salvage pathway, HMP/HET => TMP [PATH:map00730 map01100] -D M00125 Riboflavin biosynthesis, plants and bacteria, GTP => riboflavin/FMN/FAD [PATH:map00740 map01240 map01100 map01110] -D M00911 Riboflavin biosynthesis, fungi, GTP => riboflavin/FMN/FAD [PATH:map00740 map01240 map01100] -D M00124 Pyridoxal-P biosynthesis, erythrose-4P => pyridoxal-P [PATH:map00750 map01240 map01100] -D M00916 Pyridoxal-P biosynthesis, R5P + glyceraldehyde-3P + glutamine => pyridoxal-P [PATH:map00750 map01240 map01100] -D M00115 NAD biosynthesis, aspartate => quinolinate => NAD [PATH:map00760 map01240 map01100] -D M00912 NAD biosynthesis, tryptophan => quinolinate => NAD [PATH:map00380 map00760 map01240 map01100] -D M00810 Nicotine degradation, pyridine pathway, nicotine => 2,6-dihydroxypyridine/succinate semialdehyde [PATH:map00760 map01100 map01120] -D M00811 Nicotine degradation, pyrrolidine pathway, nicotine => succinate semialdehyde [PATH:map00760 map01100 map01120] -D M00622 Nicotinate degradation, nicotinate => fumarate [PATH:map00760 map01100 map01120] -D M00119 Pantothenate biosynthesis, valine/L-aspartate => pantothenate [PATH:map00770 map01240 map01100 map01110] -D M00913 Pantothenate biosynthesis, 2-oxoisovalerate/spermine => pantothenate [PATH:map00770 map01240 map01100] -D M00120 Coenzyme A biosynthesis, pantothenate => CoA [PATH:map00770 map01240 map01100] -D M00914 Coenzyme A biosynthesis, archaea, 2-oxoisovalerate => 4-phosphopantoate => CoA [PATH:map00770 map01240 map01100] -D M00572 Pimeloyl-ACP biosynthesis, BioC-BioH pathway, malonyl-ACP => pimeloyl-ACP [PATH:map00780 map01240 map01100] -D M00123 Biotin biosynthesis, pimeloyl-ACP/CoA => biotin [PATH:map00780 map01240 map01100] -D M00573 Biotin biosynthesis, BioI pathway, long-chain-acyl-ACP => pimeloyl-ACP => biotin [PATH:map00780 map01240 map01100] -D M00577 Biotin biosynthesis, BioW pathway, pimelate => pimeloyl-CoA => biotin [PATH:map00780 map01240 map01100] -D M00881 Lipoic acid biosynthesis, plants and bacteria, octanoyl-ACP => dihydrolipoyl-E2/H [PATH:map00785 map01240 map01100] -D M00882 Lipoic acid biosynthesis, eukaryotes, octanoyl-ACP => dihydrolipoyl-H [PATH:map00785 map01240 map01100] -D M00883 Lipoic acid biosynthesis, animals and bacteria, octanoyl-ACP => dihydrolipoyl-H => dihydrolipoyl-E2 [PATH:map00785 map01240 map01100] -D M00884 Lipoic acid biosynthesis, octanoyl-CoA => dihydrolipoyl-E2 [PATH:map00785 map01240 map01100] -D M00126 Tetrahydrofolate biosynthesis, GTP => THF [PATH:map00790 map00670 map01240 map01100] -D M00840 Tetrahydrofolate biosynthesis, mediated by ribA and trpF, GTP => THF [PATH:map00790 map01240 map01100] -D M00841 Tetrahydrofolate biosynthesis, mediated by PTPS, GTP => THF [PATH:map00790 map01240 map01100] -D M00842 Tetrahydrobiopterin biosynthesis, GTP => BH4 [PATH:map00790 map01240 map01100] -D M00843 L-threo-Tetrahydrobiopterin biosynthesis, GTP => L-threo-BH4 [PATH:map00790 map01240 map01100] -D M00880 Molybdenum cofactor biosynthesis, GTP => molybdenum cofactor [PATH:map00790 map01240 map01100] -D M00140 C1-unit interconversion, prokaryotes [PATH:map00670 map01240 map01100] -D M00141 C1-unit interconversion, eukaryotes [PATH:map00670 map01240 map01100] -D M00846 Siroheme biosynthesis, glutamyl-tRNA => siroheme [PATH:map00860 map01240 map01100 map01110] -D M00868 Heme biosynthesis, animals and fungi, glycine => heme [PATH:map00860 map01240 map01100 map01110] -D M00121 Heme biosynthesis, plants and bacteria, glutamate => heme [PATH:map00860 map01240 map01100 map01110] -D M00926 Heme biosynthesis, bacteria, glutamyl-tRNA => coproporphyrin III => heme [PATH:map00860 map01240 map01100] -D M00847 Heme biosynthesis, archaea, siroheme => heme [PATH:map00860 map01240 map01100 map01110] -D M00924 Cobalamin biosynthesis, anaerobic, uroporphyrinogen III => sirohydrochlorin => cobyrinate a,c-diamide [PATH:map00860 map01240 map01100] -D M00925 Cobalamin biosynthesis, aerobic, uroporphyrinogen III => precorrin 2 => cobyrinate a,c-diamide [PATH:map00860 map01240 map01100] -D M00122 Cobalamin biosynthesis, cobyrinate a,c-diamide => cobalamin [PATH:map00860 map01240 map01100] -D M00836 Coenzyme F430 biosynthesis, sirohydrochlorin => coenzyme F430 [PATH:map00860 map01240 map01100 map01120] -D M00117 Ubiquinone biosynthesis, prokaryotes, chorismate (+ polyprenyl-PP) => ubiquinol [PATH:map00130 map01240 map01100 map01110] -D M00128 Ubiquinone biosynthesis, eukaryotes, 4-hydroxybenzoate + polyprenyl-PP => ubiquinol [PATH:map00130 map01240 map01100] -D M00116 Menaquinone biosynthesis, chorismate (+ polyprenyl-PP) => menaquinol [PATH:map00130 map01240 map01100 map01110] -D M00930 Menaquinone biosynthesis, futalosine pathway [PATH:map00130 map01240 map01100] -D M00931 Menaquinone biosynthesis, modified futalosine pathway [PATH:map00130 map01240 map01100] -D M00932 Phylloquinone biosynthesis, chorismate (+ phytyl-PP) => phylloquinol [PATH:map00130 map01240 map01100 map01110] -D M00112 Tocopherol/tocotorienol biosynthesis, homogentisate + phytyl/geranylgeranyl-PP => tocopherol/tocotorienol [PATH:map00130 map01240 map01100 map01110] -D M00933 Plastoquinone biosynthesis, homogentisate + solanesyl-PP => plastoquinol [PATH:map00130 map01240 map01100 map01110] -B Biosynthesis of terpenoids and polyketides -C Terpenoid backbone biosynthesis -D M00095 C5 isoprenoid biosynthesis, mevalonate pathway [PATH:map00900 map01100 map01110] -D M00849 C5 isoprenoid biosynthesis, mevalonate pathway, archaea [PATH:map00900 map01100 map01110] -D M00096 C5 isoprenoid biosynthesis, non-mevalonate pathway [PATH:map00900 map01100 map01110] -D M00364 C10-C20 isoprenoid biosynthesis, bacteria [PATH:map00900 map01100 map01110] -D M00365 C10-C20 isoprenoid biosynthesis, archaea [PATH:map00900 map01100 map01110] -D M00366 C10-C20 isoprenoid biosynthesis, plants [PATH:map00900 map01100 map01110] -D M00367 C10-C20 isoprenoid biosynthesis, non-plant eukaryotes [PATH:map00900 map01100 map01110] -C Plant terpenoid biosynthesis -D M00097 beta-Carotene biosynthesis, GGAP => beta-carotene [PATH:map00906 map01100 map01110] -D M00372 Abscisic acid biosynthesis, beta-carotene => abscisic acid [PATH:map00906 map01100 map01110] -D M00371 Castasterone biosynthesis, campesterol => castasterone [PATH:map00905 map01100 map01110] -D M00927 Gibberellin A12 biosynthesis, GAPP => GA12 [PATH:map00904 map01100 map01110] -D M00928 Gibberellin A4/A1 biosynthesis, GA12 => GA4 / GA53 => GA1 [PATH:map00904 map01100 map01110] -D M00929 Gibberellin A1 biosynthesis, GGPP => GA1 [PATH:map00904 map01100 map01110] -C Macrolide biosynthesis -D M00773 Tylosin biosynthesis, methylmalonyl-CoA + malonyl-CoA => tylactone => tylosin [PATH:map00522 map01100 map01110] -D M00934 Mycinamicin biosynthesis, malonyl-CoA + methylmalonyl-CoA => protomycinolide IV => mycinamicin II [PATH:map00522 map01100 map01110] -D M00774 Erythromycin biosynthesis, propanoyl-CoA + methylmalonyl-CoA => deoxyerythronolide B => erythromycin A/B [PATH:map00522 map01100 map01110] -D M00775 Oleandomycin biosynthesis, malonyl-CoA + methylmalonyl-CoA => 8,8a-deoxyoleandolide => oleandomycin [PATH:map00522 map01100 map01110] -D M00776 Pikromycin/methymycin biosynthesis, methylmalonyl-CoA + malonyl-CoA => narbonolide/10-deoxymethynolide => pikromycin/methymycin [PATH:map00522 map01100 map01110] -D M00777 Avermectin biosynthesis, 2-methylbutanoyl-CoA/isobutyryl-CoA => 6,8a-Seco-6,8a-deoxy-5-oxoavermectin 1a/1b aglycone => avermectin A1a/B1a/A1b/B1b [PATH:map00522 map01100 map01110] -C Enediyne biosynthesis -D M00824 9-membered enediyne core biosynthesis, malonyl-CoA => 3-hydroxyhexadeca-4,6,8,10,12,14-hexaenoyl-ACP => 9-membered enediyne core [PATH:map01059 map01100 map01110] -D M00825 10-membered enediyne core biosynthesis, malonyl-CoA => 3-hydroxyhexadeca-4,6,8,10,12,14-hexaenoyl-ACP => 10-membered enediyne core [PATH:map01059 map01100 map01110] -D M00826 C-1027 benzoxazolinate moiety biosynthesis, chorismate => benzoxazolinyl-CoA [PATH:map01059 map01100 map01110] -D M00827 C-1027 beta-amino acid moiety biosynthesis, tyrosine => 3-chloro-4,5-dihydroxy-beta-phenylalanyl-PCP [PATH:map01059 map01100 map01110] -D M00828 Maduropeptin beta-hydroxy acid moiety biosynthesis, tyrosine => 3-(4-hydroxyphenyl)-3-oxopropanoyl-PCP [PATH:map01059 map01100 map01110] -D M00829 3,6-Dimethylsalicylyl-CoA biosynthesis, malonyl-CoA => 6-methylsalicylate => 3,6-dimethylsalicylyl-CoA [PATH:map01059 map01100 map01110] -D M00830 Neocarzinostatin naphthoate moiety biosynthesis, malonyl-CoA => 2-hydroxy-5-methyl-1-naphthoate => 2-hydroxy-7-methoxy-5-methyl-1-naphthoyl-CoA [PATH:map01059 map01100 map01110] -D M00831 Kedarcidin 2-hydroxynaphthoate moiety biosynthesis, malonyl-CoA => 3,6,8-trihydroxy-2-naphthoate => 3-hydroxy-7,8-dimethoxy-6-isopropoxy-2-naphthoyl-CoA [PATH:map01059 map01100 map01110] -D M00832 Kedarcidin 2-aza-3-chloro-beta-tyrosine moiety biosynthesis, azatyrosine => 2-aza-3-chloro-beta-tyrosyl-PCP [PATH:map01059 map01100 map01110] -D M00834 Calicheamicin orsellinate moiety biosynthesis, malonyl-CoA => orsellinate-ACP => 5-iodo-2,3-dimethoxyorsellinate-ACP [PATH:map01059 map01100 map01110] -D M00833 Calicheamicin biosynthesis, calicheamicinone => calicheamicin [PATH:map01059 map01100 map01110] -C Type II polyketide biosynthesis -D M00778 Type II polyketide backbone biosynthesis, acyl-CoA + malonyl-CoA => polyketide [PATH:map01056 map00253 map01100 map01110] -D M00779 Dihydrokalafungin biosynthesis, octaketide => dihydrokalafungin [PATH:map01057 map01100 map01110] -D M00780 Tetracycline/oxytetracycline biosynthesis, pretetramide => tetracycline/oxytetracycline [PATH:map00253 map01057 map01100 map01110] -D M00823 Chlortetracycline biosynthesis, pretetramide => chlortetracycline [PATH:map00253 map01057 map01100 map01110] -D M00781 Nogalavinone/aklavinone biosynthesis, deoxynogalonate/deoxyaklanonate => nogalavinone/aklavinone [PATH:map01057 map01100 map01110] -D M00782 Mithramycin biosynthesis, 4-demethylpremithramycinone => mithramycin [PATH:map01057 map01100 map01110] -D M00783 Tetracenomycin C/8-demethyltetracenomycin C biosynthesis, tetracenomycin F2 => tetracenomycin C/8-demethyltetracenomycin C [PATH:map01057 map01100 map01110] -D M00784 Elloramycin biosynthesis, 8-demethyltetracenomycin C => elloramycin A [PATH:map01057 map01100 map01110] -C Polyketide sugar unit biosynthesis -D M00793 dTDP-L-rhamnose biosynthesis [PATH:map00521 map00523 map00541 map01100 map01110] -D M00794 dTDP-6-deoxy-D-allose biosynthesis [PATH:map00523 map01100 map01110] -D M00795 dTDP-beta-L-noviose biosynthesis [PATH:map00523 map01100 map01110] -D M00796 dTDP-D-mycaminose biosynthesis [PATH:map00523 map01100 map01110] -D M00797 dTDP-D-desosamine biosynthesis [PATH:map00523 map01100 map01110] -D M00798 dTDP-L-mycarose biosynthesis [PATH:map00523 map01100 map01110] -D M00799 dTDP-L-oleandrose biosynthesis [PATH:map00523 map01100 map01110] -D M00800 dTDP-L-megosamine biosynthesis [PATH:map00523 map01100 map01110] -D M00801 dTDP-L-olivose biosynthesis [PATH:map00523 map01100 map01110] -D M00802 dTDP-D-forosamine biosynthesis [PATH:map00523 map01100 map01110] -D M00803 dTDP-D-angolosamine biosynthesis [PATH:map00523 map01100 map01110] -B Biosynthesis of other secondary metabolites -C Biosynthesis of phytochemical compounds -D M00039 Monolignol biosynthesis, phenylalanine/tyrosine => monolignol [PATH:map00940 map01100 map01110] -D M00137 Flavanone biosynthesis, phenylalanine => naringenin [PATH:map00940 map00941 map01100 map01110] -D M00138 Flavonoid biosynthesis, naringenin => pelargonidin [PATH:map00941 map01100 map01110] -D M00370 Glucosinolate biosynthesis, tryptophan => glucobrassicin [PATH:map00380 map00966 map01210 map01100 map01110] -D M00900 Cronin biosynthesis, zeaxanthin => crocin [PATH:map00999 map01100 map01110] -D M00894 Cannabidiol biosynthesis, malonyl-CoA => cannabidiol/dronabinol [PATH:map00999 map01100 map01110] -D M00902 Podophyllotoxin biosynthesis, coniferyl alcohol => podophyllotoxin [PATH:map00998 map01100 map01110] -C Biosynthesis of beta-lactams -D M00672 Penicillin biosynthesis, aminoadipate + cycteine + valine => penicillin [PATH:map00311 map01100 map01110] -D M00673 Cephamycin C biosynthesis, aminoadipate + cycteine + valine => cephamycin C [PATH:map00311 map01100 map01110] -D M00675 Carbapenem-3-carboxylate biosynthesis, pyrroline-5-carboxylate + malonyl-CoA => carbapenem-3-carboxylate [PATH:map00332 map01100 map01110] -D M00736 Nocardicin A biosynthesis, L-pHPG + arginine + serine => nocardicin A [PATH:map00261 map01100 map01110] -D M00674 Clavaminate biosynthesis, arginine + glyceraldehyde-3P => clavaminate [PATH:map00331 map01100 map01110] -C Biosynthesis of other antibiotics -D M00877 Kanosamine biosynthesis glucose 6-phosphate => kanosamine [PATH:map00998 map01100 map01110] -D M00889 Puromycin biosynthesis, ATP => puromycin [PATH:map00998 map01100 map01110] -D M00815 Validamycin A biosynthesis, sedoheptulopyranose-7P => validamycin A [PATH:map00525 map01100 map01110] -D M00904 Dapdiamides biosynthesis, L-2,3-diaminopropanoate => dapdiamide A/B/C [PATH:map00997 map01100 map01110] -D M00785 Cycloserine biosynthesis, arginine/serine => cycloserine [PATH:map00997 map01100 map01110] -D M00787 Bacilysin biosynthesis, prephenate => bacilysin [PATH:map00998 map01100 map01110] -D M00848 Aurachin biosynthesis, anthranilate => aurachin A [PATH:map00998 map01100 map01110] -D M00788 Terpentecin biosynthesis, GGAP => terpentecin [PATH:map00999 map01100 map01110] -D M00819 Pentalenolactone biosynthesis, farnesyl-PP => pentalenolactone [PATH:map00999 map01100 map01110] -D M00903 Fosfomycin biosynthesis, phosphoenolpyruvate => fosfomycin [PATH:map00998 map01100 map01110] -D M00890 Roseoflavin biosynthesis, FMN => roseoflavin [PATH:map00997 map01100 map01110] -C Biosynthesis of other fungal compounds -D M00661 Paspaline biosynthesis, geranylgeranyl-PP + indoleglycerol phosphate => paspaline [PATH:map00403 map01100 map01110] -D M00786 Fumitremorgin alkaloid biosynthesis, tryptophan + proline => fumitremorgin C/A [PATH:map00404 map01100 map01110] -D M00893 Lovastatin biosynthesis, malonyl-CoA => lovastatin acid [PATH:map00999 map01100 map01110] -D M00891 Ditryptophenaline biosynthesis, tryptophan + phenylalanine => ditryptophenaline [PATH:map00998 map01100 map01110] -D M00901 Fumiquinazoline biosynthesis, tryptophan + alanine + anthranilate => fumiquinazoline [PATH:map00998 map01100 map01110] -C Biosynthesis of other bacterial compounds -D M00814 Acarbose biosynthesis, sedoheptulopyranose-7P => acarbose [PATH:map00525 map01100 map01110] -D M00789 Rebeccamycin biosynthesis, tryptophan => rebeccamycin [PATH:map00404 map01100 map01110] -D M00790 Pyrrolnitrin biosynthesis, tryptophan => pyrrolnitrin [PATH:map00404 map01100 map01110] -D M00805 Staurosporine biosynthesis, tryptophan => staurosporine [PATH:map00404 map01100 map01110] -D M00808 Violacein biosynthesis, tryptophan => violacein [PATH:map00404 map01100 map01110] -D M00835 Pyocyanine biosynthesis, chorismate => pyocyanine [PATH:map00405 map01100 map01110] -D M00837 Prodigiosin biosynthesis, L-proline => prodigiosin [PATH:map00333 map01100 map01110] -D M00838 Undecylprodigiosin biosynthesis, L-proline => undecylprodigiosin [PATH:map00333 map01100 map01110] -D M00921 Cyclooctatin biosynthesis, dimethylallyl-PP + isopentenyl-PP => cyclooctatin [PATH:map00900 map00999 map01100 map01110] -D M00905 Grixazone biosynthesis, aspartate 4-semialdehyde => grixazone B [PATH:map00997 map01100 map01110] -D M00876 Staphyloferrin A biosynthesis, L-ornithine => staphyloferrin A [PATH:map00997 map01100 map01110] -D M00875 Staphyloferrin B biosynthesis, L-serine => staphyloferrin B [PATH:map00997 map01100 map01110] -D M00918 Aerobactin biosynthesis, lysine => aerobactin [PATH:map00997 map01100 map01110] -D M00906 Ethynylserine biosynthesis, lysine => ethynylserine [PATH:map00997 map01100 map01110] -B Xenobiotics biodegradation -C Aromatics degradation -D M00538 Toluene degradation, toluene => benzoate [PATH:map00623 map01220 map01100 map01120] -D M00537 Xylene degradation, xylene => methylbenzoate [PATH:map00622 map01220 map01100 map01120] -D M00419 Cymene degradation, p-cymene => p-cumate [PATH:map00622 map01220 map01100 map01120] -D M00547 Benzene/toluene degradation, benzene => catechol / toluene => 3-methylcatechol [PATH:map00361 map00362 map00623 map01220 map01100 map01120] -D M00548 Benzene degradation, benzene => catechol [PATH:map00361 map00362 map01220 map01100 map01120] -D M00551 Benzoate degradation, benzoate => catechol / methylbenzoate => methylcatechol [PATH:map00362 map00622 map01220 map01100 map01120] -D M00637 Anthranilate degradation, anthranilate => catechol [PATH:map00627 map01100 map01120] -D M00568 Catechol ortho-cleavage, catechol => 3-oxoadipate [PATH:map00362 map01220 map01100 map01120] -D M00569 Catechol meta-cleavage, catechol => acetyl-CoA / 4-methylcatechol => propanoyl-CoA [PATH:map00362 map00622 map01220 map01100 map01120] -D M00539 Cumate degradation, p-cumate => 2-oxopent-4-enoate + 2-methylpropanoate [PATH:map00622 map01220 map01100 map01120] -D M00543 Biphenyl degradation, biphenyl => 2-oxopent-4-enoate + benzoate [PATH:map00621 map01220 map01100 map01120] -D M00544 Carbazole degradation, carbazole => 2-oxopent-4-enoate + anthranilate [PATH:map00621 map01220 map01100 map01120] -D M00418 Toluene degradation, anaerobic, toluene => benzoyl-CoA [PATH:map00623 map01220 map01100 map01120] -D M00541 Benzoyl-CoA degradation, benzoyl-CoA => 3-hydroxypimeloyl-CoA [PATH:map00362 map01220 map01100 map01120] -D M00540 Benzoate degradation, cyclohexanecarboxylic acid =>pimeloyl-CoA [PATH:map00362 map01220 map01100 map01120] -D M00534 Naphthalene degradation, naphthalene => salicylate [PATH:map00626 map01220 map01100 map01120] -D M00638 Salicylate degradation, salicylate => gentisate [PATH:map00626 map01100 map01120] -D M00624 Terephthalate degradation, terephthalate => 3,4-dihydroxybenzoate [PATH:map00624 map01220 map01100 map01120] -D M00623 Phthalate degradation, phthalate => protocatechuate [PATH:map00624 map01220 map01100 map01120] -D M00636 Phthalate degradation, phthalate => protocatechuate [PATH:map00624 map01220 map01100 map01120] -D M00878 Phenylacetate degradation, phenylaxetate => acetyl-CoA/succinyl-CoA [PATH:map00360 map01100 map01120] -D M00545 Trans-cinnamate degradation, trans-cinnamate => acetyl-CoA [PATH:map00360 map01220 map01100 map01120] -D M00915 Caffeine degradation, caffeine => xanthine [PATH:map00232 map01100 map01120] -ASignature modules -B Gene set -C Pathogenicity -D M00852 Vibrio cholerae pathogenicity signature, toxin coregulated pilus [PATH:map05110 map05111] [BR:ko02044] -D M00850 Vibrio cholerae pathogenicity signature, cholera toxins [PATH:map05110] -D M00542 EHEC/EPEC pathogenicity signature, T3SS and effectors [PATH:map05130] -D M00363 EHEC pathogenicity signature, Shiga toxin [PATH:map05130 map05131] -D M00853 ETEC pathogenicity signature, colonization factors -D M00576 ETEC pathogenicity signature, heat-labile and heat-stable enterotoxins -D M00856 Salmonella enterica pathogenicity signature, typhoid toxin -D M00857 Salmonella enterica pathogenicity signature, Vi antigen -D M00575 Pertussis pathogenicity signature, T1SS [PATH:map05133] -D M00574 Pertussis pathogenicity signature, pertussis toxin [PATH:map05133] -D M00564 Helicobacter pylori pathogenicity signature, cagA pathogenicity island [PATH:map05120] -D M00859 Bacillus anthracis pathogenicity signature, anthrax toxin -D M00860 Bacillus anthracis pathogenicity signature, polyglutamic acid capsule biosynthesis -C Drug resistance -D M00851 Carbapenem resistance [PATH:map01501] -D M00625 Methicillin resistance [PATH:map01501] -D M00627 beta-Lactam resistance, Bla system [PATH:map01501] -D M00745 Imipenem resistance, repression of porin OprD -D M00651 Vancomycin resistance, D-Ala-D-Lac type [PATH:map01502 map02020] -D M00652 Vancomycin resistance, D-Ala-D-Ser type [PATH:map01502 map02020] -D M00704 Tetracycline resistance, efflux pump Tet38 -D M00725 Cationic antimicrobial peptide (CAMP) resistance, dltABCD operon [PATH:map01503] -D M00726 Cationic antimicrobial peptide (CAMP) resistance, lysyl-phosphatidylglycerol (L-PG) synthase MprF [PATH:map01503] -D M00730 Cationic antimicrobial peptide (CAMP) resistance, VraFG transporter [PATH:map01503] -D M00744 Cationic antimicrobial peptide (CAMP) resistance, protease PgtE -D M00718 Multidrug resistance, efflux pump MexAB-OprM -D M00639 Multidrug resistance, efflux pump MexCD-OprJ -D M00641 Multidrug resistance, efflux pump MexEF-OprN -D M00642 Multidrug resistance, efflux pump MexJK-OprM -D M00643 Multidrug resistance, efflux pump MexXY-OprM -D M00769 Multidrug resistance, efflux pump MexPQ-OpmE -D M00649 Multidrug resistance, efflux pump AdeABC [PATH:map01501] -D M00696 Multidrug resistance, efflux pump AcrEF-TolC -D M00697 Multidrug resistance, efflux pump MdtEF-TolC -D M00698 Multidrug resistance, efflux pump BpeEF-OprC -D M00700 Multidrug resistance, efflux pump AbcA -D M00702 Multidrug resistance, efflux pump NorB -D M00714 Multidrug resistance, efflux pump QacA -D M00705 Multidrug resistance, efflux pump MepA -D M00746 Multidrug resistance, repression of porin OmpF -C Plant pathogenicity -D M00660 Xanthomonas spp. pathogenicity signature, T3SS and effectors -C Symbiosis -D M00664 Nodulation -B Module set -C Metabolic capacity -D M00611 Oxygenic photosynthesis in plants and cyanobacteria -D M00612 Anoxygenic photosynthesis in purple bacteria -D M00613 Anoxygenic photosynthesis in green nonsulfur bacteria -D M00614 Anoxygenic photosynthesis in green sulfur bacteria -D M00617 Methanogen -D M00618 Acetogen -D M00615 Nitrate assimilation -D M00616 Sulfate-sulfur assimilation -! -# -#[ MODULE | BRITE | PATHWAY | KEGG2 | KEGG ] -#Last updated: November 24, 2020