{"ymdb_id":"YMDB00266","created_at":"2011-05-29T18:00:15.000Z","updated_at":"2016-09-08T18:35:15.000Z","name":"Geranyl-PP","cas":"763-10-0","state":"Solid","melting_point":"","description":"Geranyl pyrophosphate is an intermediate in the HMG-CoA reductase pathway used by organisms in the biosynthesis of farnesyl pyrophosphate, geranylgeranyl pyrophosphate, cholesterol, terpenes and terpenoids.","experimental_water_solubility":"","experimental_logp_hydrophobicity":"","location":"cytoplasm","synthesis_reference":"Runquist M; Ericsson J; Thelin A; Chojnacki T; Dallner G  Biosynthesis of trans,trans,trans-geranylgeranyl diphosphate by the cytosolic fraction from rat tissues.    Biochemical and biophysical research communications  (1992),  186(1),  157-65.","chebi_id":"17211","hmdb_id":"HMDB01285","kegg_id":"C00341","pubchem_id":"445995","cs_id":"24785181","foodb_id":null,"wikipedia_link":"Geranyl_pyrophosphate","biocyc_id":"GERANYL-PP","iupac":"[({[(2E)-3,7-dimethylocta-2,6-dien-1-yl]oxy}(hydroxy)phosphoryl)oxy]phosphonic acid","traditional_iupac":"geranyl diphosphate","logp":"1.9570187856666668","pka":"3.2043406094078315","alogps_solubility":"9.02e-01 g/l","alogps_logp":"1.63","alogps_logs":"-2.54","acceptor_count":"5","donor_count":"3","rotatable_bond_count":"8","polar_surface_area":"113.29000000000002","refractivity":"72.92789999999998","polarizability":"28.51754860324528","formal_charge":"0","physiological_charge":"-2","pka_strongest_basic":null,"pka_strongest_acidic":"1.7672186885241006","bioavailability":"1","number_of_rings":"0","rule_of_five":"1","ghose_filter":"1","veber_rule":"0","mddr_like_rule":"0","synonyms":["(2E)-3,7-dimethylocta-2,6-dien-1-yl trihydrogen diphosphate","geranyl diphosphate","Geranyl pyrophosphic acid","geranyl-diphosphate","geranyl-PP","geranyl-pyrophosphate","Monoterpenyl diphosphate","Neryl diphosphate","trans-geranyl pyrophosphate"],"pathways":[{"name":"Terpenoid backbone biosynthesis","kegg_map_id":"00900"},{"name":"Ubiquinone and other terpenoid-quinone biosynthesis","kegg_map_id":"00130"},{"name":"Cholesterol biosynthesis and metabolism CE(10:0)","kegg_map_id":null},{"name":"Cholesterol biosynthesis and metabolism CE(12:0)","kegg_map_id":null},{"name":"Cholesterol biosynthesis and metabolism CE(14:0)","kegg_map_id":null},{"name":"Cholesterol biosynthesis and metabolism CE(16:0)","kegg_map_id":null},{"name":"Cholesterol biosynthesis and metabolism CE(18:0)","kegg_map_id":null},{"name":"Steroid biosynthesis","kegg_map_id":"00100"}],"growth_conditions":[],"references":[{"pubmed_id":21051339,"citation":"UniProt Consortium (2011). \"Ongoing and future developments at the Universal Protein Resource.\" Nucleic Acids Res 39:D214-D219."}],"proteins":[{"created_at":"2011-05-26T18:23:18.000Z","updated_at":"2011-07-22T17:54:38.000Z","name":"Farnesyl pyrophosphate synthase","uniprot_id":"P08524","uniprot_name":"FPPS_YEAST","enzyme":true,"transporter":false,"gene_name":"ERG20","num_residues":352,"molecular_weight":"40483.0","theoretical_pi":"5.11","general_function":"Involved in isoprenoid biosynthetic process","specific_function":"Catalyzes the sequential condensation of isopentenyl pyrophosphate with the allylic pyrophosphates, dimethylallyl pyrophosphate, and then with the resultant geranylpyrophosphate to the ultimate product farnesyl pyrophosphate","reactions":[{"id":1466,"direction":"\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":1562,"direction":"\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":2529,"direction":"\u003e","locations":"Cytoplasm","altext":"Dimethylallyl diphosphate + isopentenyl diphosphate = diphosphate + geranyl diphosphate.","export":false,"pw_reaction_id":null,"source":null},{"id":2530,"direction":"\u003e","locations":"Cytoplasm","altext":"Geranyl diphosphate + isopentenyl diphosphate = diphosphate + (2E,6E)-farnesyl diphosphate.","export":false,"pw_reaction_id":null,"source":null},{"id":14374,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006891","source":"Smpdb"},{"id":14375,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006892","source":"Smpdb"},{"id":14376,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R007264","source":"Smpdb"}],"signal_regions":"None","transmembrane_regions":"None","pdb_id":null,"cellular_location":"Cytoplasm","genbank_gene_id":"J05091","genbank_protein_id":"171517","gene_card_id":"ERG20","chromosome_location":"chromosome 10","locus":"YJL167W","synonyms":["FPP synthase","FPS","Farnesyl diphosphate synthase","Dimethylallyltranstransferase","Geranyltranstransferase"],"enzyme_classes":["2.5.1.10","2.5.1.1"],"go_classes":[{"category":"Component","description":" Not Available"},{"category":"Function","description":" Not Available"},{"category":"Process","description":" metabolic process"},{"category":"Process","description":" primary metabolic process"},{"category":"Process","description":" lipid metabolic process"},{"category":"Process","description":" cellular lipid metabolic process"},{"category":"Process","description":" isoprenoid metabolic process"},{"category":"Process","description":" isoprenoid biosynthetic process"}],"pfams":[{"name":"polyprenyl_synt","identifier":"PF00348"}],"pathways":[{"name":"Terpenoid backbone biosynthesis","kegg_map_id":"00900"},{"name":"Cholesterol biosynthesis and metabolism CE(10:0)","kegg_map_id":null},{"name":"Cholesterol biosynthesis and metabolism CE(12:0)","kegg_map_id":null},{"name":"Cholesterol biosynthesis and metabolism CE(14:0)","kegg_map_id":null},{"name":"Cholesterol biosynthesis and metabolism CE(16:0)","kegg_map_id":null},{"name":"Cholesterol biosynthesis and metabolism CE(18:0)","kegg_map_id":null}],"gene_sequence":"ATGGCTTCAGAAAAAGAAATTAGGAGAGAGAGATTCTTGAACGTTTTCCCTAAATTAGTAGAGGAATTGAACGCATCGCTTTTGGCTTACGGTATGCCTAAGGAAGCATGTGACTGGTATGCCCACTCATTGAACTACAACACTCCAGGCGGTAAGCTAAATAGAGGTTTGTCCGTTGTGGACACGTATGCTATTCTCTCCAACAAGACCGTTGAACAATTGGGGCAAGAAGAATACGAAAAGGTTGCCATTCTAGGTTGGTGCATTGAGTTGTTGCAGGCTTACTTCTTGGTCGCCGATGATATGATGGACAAGTCCATTACCAGAAGAGGCCAACCATGTTGGTACAAGGTTCCTGAAGTTGGGGAAATTGCCATCAATGACGCATTCATGTTAGAGGCTGCTATCTACAAGCTTTTGAAATCTCACTTCAGAAACGAAAAATACTACATAGATATCACCGAATTGTTCCATGAGGTCACCTTCCAAACCGAATTGGGCCAATTGATGGACTTAATCACTGCACCTGAAGACAAAGTCGACTTGAGTAAGTTCTCCCTAAAGAAGCACTCCTTCATAGTTACTTTCAAGACTGCTTACTATTCTTTCTACTTGCCTGTCGCATTGGCCATGTACGTTGCCGGTATCACGGATGAAAAGGATTTGAAACAAGCCAGAGATGTCTTGATTCCATTGGGTGAATACTTCCAAATTCAAGATGACTACTTAGACTGCTTCGGTACCCCAGAACAGATCGGTAAGATCGGTACAGATATCCAAGATAACAAATGTTCTTGGGTAATCAACAAGGCATTGGAACTTGCTTCCGCAGAACAAAGAAAGACTTTAGACGAAAATTACGGTAAGAAGGACTCAGTCGCAGAAGCCAAATGCAAAAAGATTTTCAATGACTTGAAAATTGAACAGCTATACCACGAATATGAAGAGTCTATTGCCAAGGATTTGAAGGCCAAAATTTCTCAGGTCGATGAGTCTCGTGGCTTCAAAGCTGATGTCTTAACTGCGTTCTTGAACAAAGTTTACAAGAGAAGCAAATAG","protein_sequence":"MASEKEIRRERFLNVFPKLVEELNASLLAYGMPKEACDWYAHSLNYNTPGGKLNRGLSVVDTYAILSNKTVEQLGQEEYEKVAILGWCIELLQAYFLVADDMMDKSITRRGQPCWYKVPEVGEIAINDAFMLEAAIYKLLKSHFRNEKYYIDITELFHEVTFQTELGQLMDLITAPEDKVDLSKFSLKKHSFIVTFKTAYYSFYLPVALAMYVAGITDEKDLKQARDVLIPLGEYFQIQDDYLDCFGTPEQIGKIGTDIQDNKCSWVINKALELASAEQRKTLDENYGKKDSVAEAKCKKIFNDLKIEQLYHEYEESIAKDLKAKISQVDESRGFKADVLTAFLNKVYKRSK"},{"created_at":"2011-05-26T18:23:57.000Z","updated_at":"2011-07-22T17:54:42.000Z","name":"Geranylgeranyl pyrophosphate synthase","uniprot_id":"Q12051","uniprot_name":"GGPPS_YEAST","enzyme":true,"transporter":false,"gene_name":"BTS1","num_residues":335,"molecular_weight":"38651.0","theoretical_pi":"6.04","general_function":"Involved in isoprenoid biosynthetic process","specific_function":"Catalyzes the trans-addition of the 3 molecules of IPP onto DMAPP to form geranylgeranyl pyrophosphate. Required for the membrane attachment of YPT1 and SEC4. May be involved in vesicle trafficking and protein sorting","reactions":[{"id":1484,"direction":"\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":2529,"direction":"\u003e","locations":"Cytoplasm","altext":"Dimethylallyl diphosphate + isopentenyl diphosphate = diphosphate + geranyl diphosphate.","export":false,"pw_reaction_id":null,"source":null},{"id":2530,"direction":"\u003e","locations":"Cytoplasm","altext":"Geranyl diphosphate + isopentenyl diphosphate = diphosphate + (2E,6E)-farnesyl diphosphate.","export":false,"pw_reaction_id":null,"source":null},{"id":2531,"direction":"\u003e","locations":"Cytoplasm","altext":"Trans,trans-farnesyl diphosphate + isopentenyl diphosphate = diphosphate + geranylgeranyl diphosphate.","export":false,"pw_reaction_id":null,"source":null}],"signal_regions":"None","transmembrane_regions":"None","pdb_id":null,"cellular_location":"Cytoplasm","genbank_gene_id":"AY692852","genbank_protein_id":"51013155","gene_card_id":"BTS1","chromosome_location":"chromosome 16","locus":"YPL069C","synonyms":["GGPP synthase","GGPPSase","BET2 suppressor protein 1","Geranylgeranyl diphosphate synthase","Dimethylallyltranstransferase","Geranyltranstransferase","Farnesyltranstransferase"],"enzyme_classes":["2.5.1.1","2.5.1.29","2.5.1.10"],"go_classes":[{"category":"Component","description":" Not Available"},{"category":"Function","description":" Not Available"},{"category":"Process","description":" metabolic process"},{"category":"Process","description":" primary metabolic process"},{"category":"Process","description":" lipid metabolic process"},{"category":"Process","description":" cellular lipid metabolic process"},{"category":"Process","description":" isoprenoid metabolic process"},{"category":"Process","description":" isoprenoid biosynthetic process"}],"pfams":[{"name":"polyprenyl_synt","identifier":"PF00348"}],"pathways":[{"name":"Terpenoid backbone biosynthesis","kegg_map_id":"00900"}],"gene_sequence":"ATGGAGGCCAAGATAGATGAGCTGATCAATAATGATCCTGTTTGGTCCAGCCAAAATGAAAGCTTGATTTCAAAACCTTATAATCACATCCTTTTGAAACCTGGCAAGAACTTTAGACTAAATTTAATAGTTCAAATTAACAGAGTTATGAATTTGCCCAAAGACCAGCTGGCCATAGTTTCGCAAATTGTTGAGCTCTTGCATAATTCCAGCCTTTTAATCGACGATATAGAAGATAATGCTCCCTTGAGAAGGGGACAGACCACTTCTCACTTAATCTTCGGTGTACCCTCCACTATAAACACCGCAAATTATATGTATTTCAGAGCCATGCAACTTGTATCGCAGCTAACCACAAAAGAGCCTTTGTATCATAATTTGATTACGATTTTCAACGAAGAATTGATCAATCTACATAGGGGACAAGGCTTGGATATATACTGGAGAGACTTTCTGCCTGAAATCATACCTACTCAGGAGATGTATTTGAATATGGTTATGAATAAAACAGGCGGCCTTTTCAGATTAACGTTGAGACTCATGGAAGCGCTGTCTCCTTCCTCACACCACGGCCATTCGTTGGTTCCTTTCATAAATCTTCTGGGTATTATTTATCAGATTAGAGATGATTACTTGAATTTGAAAGATTTCCAAATGTCCAGCGAAAAAGGCTTTGCTGAGGACATTACAGAGGGGAAGTTATCTTTTCCCATCGTCCACGCCCTTAACTTCACTAAAACGAAAGGTCAAACTGAGCAACACAATGAAATTCTAAGAATTCTCCTGTTGAGGACAAGTGATAAAGATATAAAACTAAAGCTGATTCAAATACTGGAATTCGACACCAATTCATTGGCCTACACCAAAAATTTTATTAATCAATTAGTGAATATGATAAAAAATGATAATGAAAATAAGTATTTACCTGATTTGGCTTCGCATTCCGACACCGCCACCAATTTACATGACGAATTGTTATATATAATAGACCACTTATCCGAATTGTGA","protein_sequence":"MEAKIDELINNDPVWSSQNESLISKPYNHILLKPGKNFRLNLIVQINRVMNLPKDQLAIVSQIVELLHNSSLLIDDIEDNAPLRRGQTTSHLIFGVPSTINTANYMYFRAMQLVSQLTTKEPLYHNLITIFNEELINLHRGQGLDIYWRDFLPEIIPTQEMYLNMVMNKTGGLFRLTLRLMEALSPSSHHGHSLVPFINLLGIIYQIRDDYLNLKDFQMSSEKGFAEDITEGKLSFPIVHALNFTKTKGQTEQHNEILRILLLRTSDKDIKLKLIQILEFDTNSLAYTKNFINQLVNMIKNDNENKYLPDLASHSDTATNLHDELLYIIDHLSEL"}]}