Pathways Knowlegdes

Biological pathway database

Pathway DOIs Note
purine deoxyribonucleosides degradation

Accession ID: BioCyc:HUMAN_PWY-7179-1
  • 10.1046/j.1432-1033.2002.03097.x
 Stoychev G, Kierdaszuk B, Shugar D. Xanthosine and xanthine. Substrate properties with purine nucleoside phosphorylases, and relevance to other enzyme systems. Eur J Biochem. 2002 Aug;269(16):4048–57. doi: 10.1046/j.1432-1033.2002.03097.x. PMID: 12180982.
1,4-dihydroxy-6-naphthoate biosynthesis I

Accession ID: BioCyc:META_PWY-7374
  • 10.1021/bi400750a
  • 10.1074/jbc.m111.229781
  • 10.1126/science.1160446
  • 10.1271/bbb.80906
 Goble AM, Toro R, Li X, Ornelas A, Fan H, Eswaramoorthy S, Patskovsky Y, Hillerich B, Seidel R, Sali A, Shoichet BK, Almo SC, Swaminathan S, Tanner ME, Raushel FM. Deamination of 6-aminodeoxyfutalosine in menaquinone biosynthesis by distantly related enzymes. Biochemistry. 2013 Sep 17;52(37):6525–36. PMID: 23972005; PMCID: PMC3813303.; Li X, Apel D, Gaynor EC, Tanner ME. 5'-Methylthioadenosine Nucleosidase Is Implicated in Playing a Key Role in a Modified Futalosine Pathway for Menaquinone Biosynthesis in Campylobacter jejuni. Journal of Biological Chemistry. 2011 Jun;286(22):19392–8. doi: 10.1074/jbc.m111.229781.; HIRATSUKA T, ITOH N, SETO H, DAIRI T. Enzymatic Properties of Futalosine Hydrolase, an Enzyme Essential to a Newly Identified Menaquinone Biosynthetic Pathway. Bioscience, Biotechnology, and Biochemistry. 2009 May 23;73(5):1137–41. doi: 10.1271/bbb.80906.; Hiratsuka T, Furihata K, Ishikawa J, Yamashita H, Itoh N, Seto H, Dairi T. An alternative menaquinone biosynthetic pathway operating in microorganisms. Science. 2008 Sep 19;321(5896):1670–3. doi: 10.1126/science.1160446. PMID: 18801996.
S-methyl-5'-thioadenosine degradation III

Accession ID: BioCyc:META_PWY-6753
  • 10.1021/bi101642d
  • 10.1074/jbc.m412693200
 Guan R, Ho M, Almo SC, Schramm VL. Methylthioinosine Phosphorylase fromPseudomonas aeruginosa. Structure and Annotation of a Novel Enzyme in Quorum Sensing. Biochemistry. 2011 Jan 25;50(7):1247–54. doi: 10.1021/bi101642d.; Ting L, Shi W, Lewandowicz A, Singh V, Mwakingwe A, Birck MR, Ringia EAT, Bench G, Madrid DC, Tyler PC, Evans GB, Furneaux RH, Schramm VL, Kim K. Targeting a Novel Plasmodium falciparum Purine Recycling Pathway with Specific Immucillins. Journal of Biological Chemistry. 2005 Mar;280(10):9547–54. doi: 10.1074/jbc.m412693200.
adenosine nucleotides degradation II

Accession ID: BioCyc:META_SALVADEHYPOX-PWY
  • 10.1016/s0163-7258(00)00097-8
  • 10.1016/s0944-5013(11)80008-x
 Bzowska A, Kulikowska E, Shugar D. Purine nucleoside phosphorylases: properties, functions, and clinical aspects. Pharmacol Ther. 2000 Dec;88(3):349–425. doi: 10.1016/s0163-7258(00)00097-8. PMID: 11337031.; Elshafei AM, Abu-Shady MR, el-Beih FM, Mohamed LA. Mode and extent of degradation of adenosine and guanosine by extracts of Aspergillus terricola. Microbiol Res. 1995 Sep;150(3):291–5. doi: 10.1016/s0944-5013(11)80008-x. PMID: 7551735.
purine nucleotides degradation I (plants)

Accession ID: BioCyc:META_PWY-5044
  • 10.1074/jbc.m312929200
  • 10.1104/pp.115.4.1307
 Hesberg C, Hänsch R, Mendel RR, Bittner F. Tandem orientation of duplicated xanthine dehydrogenase genes from Arabidopsis thaliana: differential gene expression and enzyme activities. J Biol Chem. 2004 Apr 02;279(14):13547–54. doi: 10.1074/jbc.m312929200. PMID: 14726515.; Capote-Maínez N, Sánchez F. Characterization of the common bean uricase II and its expression in organs other than nodules. Plant Physiol. 1997 Dec;115(4):1307–17. PMID: 9414545; PMCID: PMC158596.
purine deoxyribonucleosides degradation I

Accession ID: BioCyc:META_PWY-7179		 -
purine nucleobases degradation II (anaerobic)

Accession ID: BioCyc:META_PWY-5497
  • 10.1128/br.40.2.403-468.1976
 Vogels GD, Van der Drift C. Degradation of purines and pyrimidines by microorganisms. Bacteriol Rev. 1976 Jun;40(2):403–68. doi: 10.1128/br.40.2.403-468.1976.
superpathway of purine nucleotide salvage

Accession ID: BioCyc:META_PWY66-409
  • 10.1016/s0021-9258(19)83606-2
  • 10.1016/s0163-7258(00)00097-8
  • 10.1073/pnas.93.3.1232
 Bzowska A, Kulikowska E, Shugar D. Purine nucleoside phosphorylases: properties, functions, and clinical aspects. Pharmacol Ther. 2000 Dec;88(3):349–425. doi: 10.1016/s0163-7258(00)00097-8. PMID: 11337031.; Spychala J, Datta NS, Takabayashi K, Datta M, Fox IH, Gribbin T, Mitchell BS. Cloning of human adenosine kinase cDNA: sequence similarity to microbial ribokinases and fructokinases. Proc. Natl. Acad. Sci. U.S.A. 1996 Feb 06;93(3):1232–7. doi: 10.1073/pnas.93.3.1232.; Lewis AS, Lowy BA. Human erythrocyte purine nucleoside phosphorylase: molecular weight and physical properties. A Theorell-Chance catalytic mechanism. Journal of Biological Chemistry. 1979 Oct;254(19):9927–32. doi: 10.1016/s0021-9258(19)83606-2.
adenine and adenosine salvage III

Accession ID: BioCyc:META_PWY-6609
  • 10.1016/s0163-7258(00)00097-8
  • 10.1016/s0944-5013(11)80008-x
 Bzowska A, Kulikowska E, Shugar D. Purine nucleoside phosphorylases: properties, functions, and clinical aspects. Pharmacol Ther. 2000 Dec;88(3):349–425. doi: 10.1016/s0163-7258(00)00097-8. PMID: 11337031.; Elshafei AM, Abu-Shady MR, el-Beih FM, Mohamed LA. Mode and extent of degradation of adenosine and guanosine by extracts of Aspergillus terricola. Microbiol Res. 1995 Sep;150(3):291–5. doi: 10.1016/s0944-5013(11)80008-x. PMID: 7551735.
superpathway of menaquinol-8 biosynthesis II

Accession ID: BioCyc:META_PWY-6263
  • 10.1016/0014-5793(81)80080-4
  • 10.1074/jbc.m111.229781
  • 10.1126/science.1160446
  • 10.1271/bbb.80906
 Li X, Apel D, Gaynor EC, Tanner ME. 5'-Methylthioadenosine Nucleosidase Is Implicated in Playing a Key Role in a Modified Futalosine Pathway for Menaquinone Biosynthesis in Campylobacter jejuni. Journal of Biological Chemistry. 2011 Jun;286(22):19392–8. doi: 10.1074/jbc.m111.229781.; HIRATSUKA T, ITOH N, SETO H, DAIRI T. Enzymatic Properties of Futalosine Hydrolase, an Enzyme Essential to a Newly Identified Menaquinone Biosynthetic Pathway. Bioscience, Biotechnology, and Biochemistry. 2009 May 23;73(5):1137–41. doi: 10.1271/bbb.80906.; Hiratsuka T, Furihata K, Ishikawa J, Yamashita H, Itoh N, Seto H, Dairi T. An alternative menaquinone biosynthetic pathway operating in microorganisms. Science. 2008 Sep 19;321(5896):1670–3. doi: 10.1126/science.1160446. PMID: 18801996.; Heide L, Leistner E. Enzymatic synthesis of the coenzyme a ester of o-succinylbenzoic acid, an intermediate in menaquinone (vitamin K2) biosynthesis. FEBS Letters. 1981 Jun 15;128(2):201–4. doi: 10.1016/0014-5793(81)80080-4.
purine deoxyribonucleosides degradation I

Accession ID: BioCyc:ECO_PWY-7179		 -
purine deoxyribonucleosides degradation I

Accession ID: BioCyc:VCHO_PWY-7179		 -
purine ribonucleosides degradation

Accession ID: BioCyc:SHIGELLA_PWY0-1296		 -
adenine and adenosine salvage IV

Accession ID: BioCyc:SHIGELLA_PWY-6610		 -
adenosine nucleotides degradation II

Accession ID: BioCyc:ECOO157_SALVADEHYPOX-PWY		 -
purine ribonucleosides degradation

Accession ID: BioCyc:ECOO157_PWY0-1296		 -
purine deoxyribonucleosides degradation

Accession ID: BioCyc:ECOO157_PWY-7179		 -
adenine and adenosine salvage III

Accession ID: BioCyc:ECOO157_PWY-6609		 -
purine deoxyribonucleosides degradation

Accession ID: BioCyc:ECOL199310_PWY-7179		 -
superpathway of purine deoxyribonucleosides degradation

Accession ID: BioCyc:ECOL199310_PWY0-1297		 -