Pathways Knowlegdes
Necessitatibus eius consequatur ex aliquid fuga eum quidem sint consectetur velit
| Pathway | DOIs | Note |
|---|---|---|
| oxidative ethanol degradation III Accession ID: BioCyc:HUMAN_PWY66-161 |
- | |
| chitin degradation to ethanol Accession ID: BioCyc:META_PWY-7118 |
|
Boles E, de Jong-Gubbels P, Pronk JT. Identification and Characterization of MAE1 , the Saccharomyces cerevisiae Structural Gene Encoding Mitochondrial Malic Enzyme. J Bacteriol. 1998 Jun;180(11):2875–82. doi: 10.1128/jb.180.11.2875-2882.1998. |
| ethanol degradation II Accession ID: BioCyc:META_PWY66-21 |
- | |
| ethanol degradation I Accession ID: BioCyc:META_ETOH-ACETYLCOA-ANA-PWY |
|
Membrillo-Hernandez J, Echave P, Cabiscol E, Tamarit J, Ros J, Lin EC. Evolution of the adhE gene product of Escherichia coli from a functional reductase to a dehydrogenase. Genetic and biochemical studies of the mutant proteins. J Biol Chem. 2000 Oct 27;275(43):33869–75. doi: 10.1074/jbc.m005464200. PMID: 10922373. |
| ethanol degradation III Accession ID: BioCyc:META_PWY66-161 |
|
Coon MJ, Koop DR. Alcohol-inducible cytochrome P-450 (P-450ALC). Arch Toxicol. 1987;60(1-3):16–21. doi: 10.1007/bf00296940. PMID: 3304205. |
| ethanol degradation IV Accession ID: BioCyc:META_PWY66-162 |
- | |
| preQ0 biosynthesis Accession ID: BioCyc:META_PWY-6703 |
|
McCarty RM, Somogyi Á, Lin G, Jacobsen NE, Bandarian V. The Deazapurine Biosynthetic Pathway Revealed: In Vitro Enzymatic Synthesis of PreQ0 from Guanosine 5'-Triphosphate in Four Steps. Biochemistry. 2009 Apr 17;48(18):3847–52. doi: 10.1021/bi900400e. |
| triethylamine degradation Accession ID: BioCyc:META_PWY-7085 |
|
Cai T, Chen L, Ren Q, Cai S, Zhang J. The biodegradation pathway of triethylamine and its biodegradation by immobilized Arthrobacter protophormiae cells. J Hazard Mater. 2011 Feb 15;186(1):59–66. doi: 10.1016/j.jhazmat.2010.10.007. PMID: 21134717. |
| methylthiopropanoate degradation I (cleavage) Accession ID: BioCyc:META_PWY-6048 |
|
Reisch CR, Stoudemayer MJ, Varaljay VA, Amster IJ, Moran MA, Whitman WB. Novel pathway for assimilation of dimethylsulphoniopropionate widespread in marine bacteria. Nature. 2011 May 12;473(7346):208–11. doi: 10.1038/nature10078. PMID: 21562561. |
| p-cymene degradation Accession ID: BioCyc:META_PWY-5266 |
|
Eaton RW. p-Cumate catabolic pathway in Pseudomonas putida Fl: cloning and characterization of DNA carrying the cmt operon. J Bacteriol. 1996 Mar;178(5):1351–62. doi: 10.1128/jb.178.5.1351-1362.1996.; DeFrank JJ, Ribbons DW. p-cymene pathway in Pseudomonas putida: initial reactions. J Bacteriol. 1977 Mar;129(3):1356–64. doi: 10.1128/jb.129.3.1356-1364.1977.; DeFrank JJ, Ribbons DW. p-Cymene pathway in Pseudomonas putida: ring cleavage of 2,3-dihydroxy-p-cumate and subsequent reactions. J Bacteriol. 1977 Mar;129(3):1365–74. doi: 10.1128/jb.129.3.1365-1374.1977. |
| superpathway of aromatic compound degradation via 2-hydroxypentadienoate Accession ID: BioCyc:META_PWY-6954 |
|
Marín M, Plumeier I, Pieper DH. Degradation of 2,3-dihydroxybenzoate by a novel meta-cleavage pathway. J Bacteriol. 2012 Aug;194(15):3851–60. PMID: 22609919; PMCID: PMC3416551.; Kasai D, Fujinami T, Abe T, Mase K, Katayama Y, Fukuda M, Masai E. Uncovering the protocatechuate 2,3-cleavage pathway genes. J Bacteriol. 2009 Nov;191(21):6758–68. PMID: 19717587; PMCID: PMC2795304.; Takenaka S, Sato T, Koshiya J, Murakami S, Aoki K. Gene cloning and characterization of a deaminase from the 4-amino-3-hydroxybenzoate-assimilating Bordetella sp. strain 10d. FEMS Microbiol Lett. 2009 Sep;298(1):93–8. doi: 10.1111/j.1574-6968.2009.01699.x. PMID: 19594622.; Harwood CS, Parales RE. The beta-ketoadipate pathway and the biology of self-identity. Annu Rev Microbiol. 1996;50():553–90. doi: 10.1146/annurev.micro.50.1.553. PMID: 8905091.; Kukor JJ, Olsen RH. Genetic organization and regulation of a meta cleavage pathway for catechols produced from catabolism of toluene, benzene, phenol, and cresols by Pseudomonas pickettii PKO1. J Bacteriol. 1991 Aug;173(15):4587–94. doi: 10.1128/jb.173.15.4587-4594.1991.; Menn FM, Zylstra GJ, Gibson DT. Location and sequence of the todF gene encoding 2-hydroxy-6-oxohepta-2,4-dienoate hydrolase in Pseudomonas putida F1. Gene. 1991 Jul 31;104(1):91–4. doi: 10.1016/0378-1119(91)90470-v. PMID: 1916282.; Kishore G, Sugumaran M, Vaidyanathan CS. Metabolism of DL-(+/-)-phenylalanine by Aspergillus niger. J Bacteriol. 1976 Oct;128(1):182–91. doi: 10.1128/jb.128.1.182-191.1976.; Wheelis ML, Stanier RY. The genetic control of dissimilatory pathways in Pseudomonas putida. Genetics. 1970 Oct;66(2):245–66. PMID: 5525301; PMCID: PMC1212492. |
| superpathway of N-acetylneuraminate degradation Accession ID: BioCyc:META_P441-PWY |
|
Byers HL, Homer KA, Beighton D. Utilization of sialic acid by viridans streptococci. J Dent Res. 1996 Aug;75(8):1564–71. doi: 10.1177/00220345960750080701. PMID: 8906124. |
| catechol degradation II (meta-cleavage pathway) Accession ID: BioCyc:META_PWY-5420 |
|
Marín M, Plumeier I, Pieper DH. Degradation of 2,3-dihydroxybenzoate by a novel meta-cleavage pathway. J Bacteriol. 2012 Aug;194(15):3851–60. PMID: 22609919; PMCID: PMC3416551.; Sala-Trepat JM, Evans WC. The meta cleavage of catechol by Azotobacter species. 4-Oxalocrotonate pathway. Eur J Biochem. 1971 Jun 11;20(3):400–13. doi: 10.1111/j.1432-1033.1971.tb01406.x. PMID: 4325686. |
| toluene degradation IV (aerobic) (via catechol) Accession ID: BioCyc:META_PWY-5178 |
|
Marín M, Plumeier I, Pieper DH. Degradation of 2,3-dihydroxybenzoate by a novel meta-cleavage pathway. J Bacteriol. 2012 Aug;194(15):3851–60. PMID: 22609919; PMCID: PMC3416551.; Johnson DR, Park J, Kukor JJ, Abriola LM. Effect of carbon starvation on toluene degradation activity by toluene monooxygenase-expressing bacteria. Biodegradation. 2006 Oct;17(5):437–45. doi: 10.1007/s10532-005-9014-x. PMID: 16477358.; Shaw JP, Rekik M, Schwager F, Harayama S. Kinetic studies on benzyl alcohol dehydrogenase encoded by TOL plasmid pWWO. A member of the zinc-containing long chain alcohol dehydrogenase family. Journal of Biological Chemistry. 1993 May;268(15):10842–50. doi: 10.1016/s0021-9258(18)82062-2. |
| mandelate degradation to acetyl-CoA Accession ID: BioCyc:META_PWY-6957 |
|
Ca´mara B, Bielecki P, Kaminski F, dos Santos VM, Plumeier I, Nikodem P, Pieper DH. A Gene Cluster Involved in Degradation of Substituted Salicylates viaorthoCleavage inPseudomonassp. Strain MT1 Encodes Enzymes Specifically Adapted for Transformation of 4-Methylcatechol and 3-Methylmuconate. J Bacteriol. 2007 Mar;189(5):1664–74. doi: 10.1128/jb.01192-06.; Tsou AY, Ransom SC, Gerlt JA, Buechter DD, Babbitt PC, Kenyon GL. Mandelate pathway of Pseudomonas putida: sequence relationships involving mandelate racemase, (S)-mandelate dehydrogenase, and benzoylformate decarboxylase and expression of benzoylformate decarboxylase in Escherichia coli. Biochemistry. 1990 Oct 23;29(42):9856–62. doi: 10.1021/bi00494a015. PMID: 2271624. |
| L-tryptophan degradation XII (Geobacillus) Accession ID: BioCyc:META_PWY-6505 |
|
Liu X, Dong Y, Li X, Ren Y, Li Y, Wang W, Wang L, Feng L. Characterization of the anthranilate degradation pathway in Geobacillus thermodenitrificans NG80-2. Microbiology (Reading). 2010 Feb;156(Pt 2):589–95. doi: 10.1099/mic.0.031880-0. PMID: 19942660. |
| heterolactic fermentation Accession ID: BioCyc:META_P122-PWY |
|
Helanto M, Aarnikunnas J, Palva A, Leisola M, Nyyssölä A. Characterization of genes involved in fructose utilization by Lactobacillus fermentum. Arch Microbiol. 2006 Jul;186(1):51–9. doi: 10.1007/s00203-006-0120-x. PMID: 16741753.; Levy HR, Vought VE, Yin X, Adams MJ. Identification of an arginine residue in the dual coenzyme-specific glucose-6-phosphate dehydrogenase from Leuconostoc mesenteroides that plays a key role in binding NADP+ but not NAD+. Arch Biochem Biophys. 1996 Feb 01;326(1):145–51. doi: 10.1006/abbi.1996.0058. PMID: 8579362.; Stournaras C, Maurer P, Kurz G. 6-phospho-D-gluconate dehydrogenase from Pseudomonas fluorescens. Properties and subunit structure. Eur J Biochem. 1983 Feb 01;130(2):391–6. doi: 10.1111/j.1432-1033.1983.tb07165.x. PMID: 6402366.; Ben-Bassat A, Goldberg I. Purification and properties of glucose-6-phosphate dehydrogenase (NADP+/NAD+) and 6-phosphogluconate dehydrogenase (NADP+/NAD+) from methanol-grown Pseudomonas C. Biochimica et Biophysica Acta (BBA) - Enzymology. 1980 Jan;611(1):1–10. doi: 10.1016/0005-2744(80)90036-4. |
| superpathway of aerobic toluene degradation Accession ID: BioCyc:META_PWY-5183 |
|
Marín M, Plumeier I, Pieper DH. Degradation of 2,3-dihydroxybenzoate by a novel meta-cleavage pathway. J Bacteriol. 2012 Aug;194(15):3851–60. PMID: 22609919; PMCID: PMC3416551.; Johnson DR, Park J, Kukor JJ, Abriola LM. Effect of carbon starvation on toluene degradation activity by toluene monooxygenase-expressing bacteria. Biodegradation. 2006 Oct;17(5):437–45. doi: 10.1007/s10532-005-9014-x. PMID: 16477358.; Fishman A, Tao Y, Wood TK. Toluene 3-Monooxygenase of Ralstonia pickettii PKO1 Is a para -Hydroxylating Enzyme. J Bacteriol. 2004 May 15;186(10):3117–23. doi: 10.1128/jb.186.10.3117-3123.2004.; Newman LM, Wackett LP. Purification and characterization of toluene 2-monooxygenase from Burkholderia cepacia G4. Biochemistry. 1995 Oct 31;34(43):14066–76. doi: 10.1021/bi00043a012. PMID: 7578004.; Inoue J, Shaw JP, Rekik M, Harayama S. Overlapping substrate specificities of benzaldehyde dehydrogenase (the xylC gene product) and 2-hydroxymuconic semialdehyde dehydrogenase (the xylG gene product) encoded by TOL plasmid pWW0 of Pseudomonas putida. J Bacteriol. 1995 Mar;177(5):1196–201. doi: 10.1128/jb.177.5.1196-1201.1995.; Olsen RH, Kukor JJ, Kaphammer B. A novel toluene-3-monooxygenase pathway cloned from Pseudomonas pickettii PKO1. J Bacteriol. 1994 Jun;176(12):3749–56. doi: 10.1128/jb.176.12.3749-3756.1994.; Shaw JP, Rekik M, Schwager F, Harayama S. Kinetic studies on benzyl alcohol dehydrogenase encoded by TOL plasmid pWWO. A member of the zinc-containing long chain alcohol dehydrogenase family. Journal of Biological Chemistry. 1993 May;268(15):10842–50. doi: 10.1016/s0021-9258(18)82062-2.; Yen KM, Karl MR, Blatt LM, Simon MJ, Winter RB, Fausset PR, Lu HS, Harcourt AA, Chen KK. Cloning and characterization of a Pseudomonas mendocina KR1 gene cluster encoding toluene-4-monooxygenase. J Bacteriol. 1991 Sep;173(17):5315–27. doi: 10.1128/jb.173.17.5315-5327.1991.; Kukor JJ, Olsen RH. Genetic organization and regulation of a meta cleavage pathway for catechols produced from catabolism of toluene, benzene, phenol, and cresols by Pseudomonas pickettii PKO1. J Bacteriol. 1991 Aug;173(15):4587–94. doi: 10.1128/jb.173.15.4587-4594.1991.; Menn FM, Zylstra GJ, Gibson DT. Location and sequence of the todF gene encoding 2-hydroxy-6-oxohepta-2,4-dienoate hydrolase in Pseudomonas putida F1. Gene. 1991 Jul 31;104(1):91–4. doi: 10.1016/0378-1119(91)90470-v. PMID: 1916282. |
| 2'-deoxy-α-D-ribose 1-phosphate degradation Accession ID: BioCyc:META_PWY-7180 |
- | |
| pyruvate fermentation to ethanol I Accession ID: BioCyc:META_PWY-5480 |
- |