{"ymdb_id":"YMDB00759","created_at":"2011-05-29T18:50:36.000Z","updated_at":"2016-09-12T20:56:47.000Z","name":"N(2)-formyl-N(1)-(5-phospho-D-ribosyl)glycinamide","cas":"349-34-8","state":"Solid","melting_point":null,"description":"5'-Phosphoribosyl-N-formylglycineamide is an intermediate in purine metabolism. It is a substrate for the enzymes phosphoribosylformylglycinamidine synthase and trifunctional purine biosynthetic protein adenosine-3. [Biocyc PWY-6277]","experimental_water_solubility":null,"experimental_logp_hydrophobicity":null,"location":"Cytoplasm","synthesis_reference":null,"chebi_id":"18272","hmdb_id":null,"kegg_id":"C04376","pubchem_id":"45266641","cs_id":"13177010","foodb_id":null,"wikipedia_link":null,"biocyc_id":"5-P-RIBOSYL-N-FORMYLGLYCINEAMIDE","iupac":"{[(2R,3S,4R)-3,4-dihydroxy-5-(2-formamidoacetamido)oxolan-2-yl]methoxy}phosphonic acid","traditional_iupac":"N-Formyl-GAR","logp":"-3.8677874486666664","pka":"6.251389406030864","alogps_solubility":"6.52e+00 g/l","alogps_logp":"-2.28","alogps_logs":"-1.68","acceptor_count":"8","donor_count":"6","rotatable_bond_count":"6","polar_surface_area":"174.64999999999998","refractivity":"60.2481","polarizability":"25.664654078934777","formal_charge":"0","physiological_charge":"-2","pka_strongest_basic":"-1.34568639077838","pka_strongest_acidic":"1.2267400183739792","bioavailability":"1","number_of_rings":"1","rule_of_five":"0","ghose_filter":"0","veber_rule":"0","mddr_like_rule":"0","synonyms":["5-phosphoribosyl-n-formylglycinamide","5'-Phosphoribosyl-N-formylglycinamide","n-formyl-gar","n-formylglycinamide ribonucleotide","N2-Formyl-N1-(5-phospho-D-ribosyl)glycinamide"],"pathways":[{"name":"Purine metabolism","kegg_map_id":"00230"},{"name":"tetrahydrofolate biosynthesis","kegg_map_id":null},{"name":"One Carbon Pool by Folate I","kegg_map_id":null},{"name":"purine nucleotides de novo biosynthesis","kegg_map_id":null}],"growth_conditions":[],"references":[{"pubmed_id":21062828,"citation":"Scheer, M., Grote, A., Chang, A., Schomburg, I., Munaretto, C., Rother, M., Sohngen, C., Stelzer, M., Thiele, J., Schomburg, D. (2011). \"BRENDA, the enzyme information system in 2011.\" Nucleic Acids Res 39:D670-D676."},{"pubmed_id":18846089,"citation":"Herrgard, M. J., Swainston, N., Dobson, P., Dunn, W. B., Arga, K. Y., Arvas, M., Bluthgen, N., Borger, S., Costenoble, R., Heinemann, M., Hucka, M., Le Novere, N., Li, P., Liebermeister, W., Mo, M. L., Oliveira, A. P., Petranovic, D., Pettifer, S., Simeonidis, E., Smallbone, K., Spasic, I., Weichart, D., Brent, R., Broomhead, D. S., Westerhoff, H. V., Kirdar, B., Penttila, M., Klipp, E., Palsson, B. O., Sauer, U., Oliver, S. G., Mendes, P., Nielsen, J., Kell, D. B. (2008). \"A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology.\" Nat Biotechnol 26:1155-1160."},{"pubmed_id":666851,"citation":"Caperelli, C. A., Chettur, G., Lin, L. Y., Benkovic, S. J. (1978). \"Purfication of glycineamide ribonucleotide transformylase.\" Biochem Biophys Res Commun 82:403-410."}],"proteins":[{"created_at":"2011-05-24T19:21:34.000Z","updated_at":"2011-05-27T14:55:57.000Z","name":"Phosphoribosylformylglycinamidine synthase","uniprot_id":"P38972","uniprot_name":"PUR4_YEAST","enzyme":true,"transporter":false,"gene_name":"ADE6","num_residues":1358,"molecular_weight":"148904.0","theoretical_pi":"4.92","general_function":"Involved in catalytic activity","specific_function":"ATP + N(2)-formyl-N(1)-(5-phospho-D- ribosyl)glycinamide + L-glutamine + H(2)O = ADP + phosphate + 2- (formamido)-N(1)-(5-phospho-D-ribosyl)acetamidine + L-glutamate","reactions":[{"id":1889,"direction":"\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":2248,"direction":"\u003e","locations":"Cytoplasm","altext":"ATP + N(2)-formyl-N(1)-(5-phospho-D-ribosyl)glycinamide + L-glutamine + H(2)O = ADP + phosphate + 2-(formamido)-N(1)-(5-phospho-D-ribosyl)acetamidine + L-glutamate.","export":false,"pw_reaction_id":null,"source":null}],"signal_regions":"None","transmembrane_regions":"None","pdb_id":null,"cellular_location":"Cytoplasm","genbank_gene_id":"Z72846","genbank_protein_id":"1323079","gene_card_id":"ADE6","chromosome_location":"chromosome 7","locus":"YGR061C","synonyms":["FGAM synthase","FGAMS","Formylglycinamide ribotide amidotransferase","FGARAT","Formylglycinamide ribotide synthetase"],"enzyme_classes":["6.3.5.3"],"go_classes":[{"category":"Component","description":" Not Available"},{"category":"Function","description":" catalytic activity"},{"category":"Function","description":" ligase activity"},{"category":"Function","description":" ligase activity, forming carbon-nitrogen bonds"},{"category":"Function","description":" carbon-nitrogen ligase activity, with glutamine as amido-N-donor"},{"category":"Function","description":" phosphoribosylformylglycinamidine synthase activity"},{"category":"Process","description":" IMP biosynthetic process"},{"category":"Process","description":" metabolic process"},{"category":"Process","description":" 'de novo' IMP biosynthetic process"},{"category":"Process","description":" nitrogen compound metabolic process"},{"category":"Process","description":" cellular nitrogen compound metabolic process"},{"category":"Process","description":" nucleobase, nucleoside, nucleotide and nucleic acid metabolic process"},{"category":"Process","description":" nucleobase, nucleoside and nucleotide metabolic process"},{"category":"Process","description":" nucleoside phosphate metabolic process"},{"category":"Process","description":" nucleotide metabolic process"},{"category":"Process","description":" purine nucleotide metabolic process"},{"category":"Process","description":" purine nucleotide biosynthetic process"},{"category":"Process","description":" purine nucleoside monophosphate biosynthetic process"},{"category":"Process","description":" purine ribonucleoside monophosphate biosynthetic process"}],"pfams":[{"name":"AIRS","identifier":"PF00586"},{"name":"AIRS_C","identifier":"PF02769"}],"pathways":[{"name":"Purine metabolism","kegg_map_id":"00230"}],"gene_sequence":"ATGACTGATTATATTTTGCCGGGTCCCAAGGCCTTATCTCAGTTCAGAGTCGATAATCTAATTAAAGATATAAACTCCTATACAAACAGTACTTCTGTCATCAATGAATTGCGTTCGTGTTACATTCACTATGTCAACGGCATCGCTCAAAATTTGTCTGAACAGGACACTAAATTGCTAGAAGTTTTGTTGACTTACGATTCTGCTTTAGATATTGCTAACGATCCATTAGCAAGACAATTAAACGATGCTGTCGCTAATAATTTACCCAGTTCAGCTCTTGGCGAAGACACATATTTGATTAGAGTTGTTCCTAGATCAGGCACTATCTCTCCTTGGTCTTCCAAGGCTACTAATATTGCTCATGTATGCGGGCTACAAGACAAAGTTCAACGTATTGAAAGAGGTTTAGCCTTACTCATAAAGACTGTTCCAGGTTTCCCTCTTTTGGAAAATCTAAATGATATTTCATTGAAGTGTGTCTACGATAGGATGACACAACAATTATATCTGACCGAACCACCAAATACGATGAGTATTTTCACACATGAAGAGCCAAAGCCATTAGTTCACGTTCCTTTAACTCCTAAGGACACTAAACAGTCTCCAAAGGATATTTTATCCAAAGCTAATACGGAATTGGGTTTAGCTCTAGATAGTGGAGAAATGGAATATTTGATTCATGCATTCGTCGAAACTATGAAAAGAGATCCTACTGATGTTGAGTTATTTATGTTCGCTCAAGTTAATTCTGAACATTGTCGTCACAAGATCTTCAATGCTGATTGGACCATTGATGGAATAAAACAACAATTCACCTTGTTTCAAATGATTAGAAATACCCATAAATTAAACCCAGAATATACTATTAGCGCCTATTCTGATAATGCAGCCGTTTTGGATAGTGAAAATGATGCCTTTTTCTTTGCACCAAATTCAACTACAAAGGAATGGACCTCTACAAAGGAAAGAATTCCATTACTTATCAAAGTCGAAACTCACAACCATCCAACAGCCGTGTCTCCTTTCCCAGGTGCTGCTACAGGTTCTGGTGGTGAAATCAGAGACGAGGGTGCTACAGGCAGAGGTTCCAAGACTAAGTGTGGTTTGAGTGGATTCTCTGTCAGCGACCTTTTGATACCAGGTAATGAACAACCTTGGGAGTTGAATATTGGTAAGCCTTACCATATTGCATCTGCATTAGATATTATGATTGAGGCTCCTTTGGGTTCAGCTGCATTTAACAATGAGTTTGGTAGACCTTGTATAAACGGTTACTTCAGAACTTTAACTACAAAGGTTTTGAATCACCAAGGGAAGGAGGAAATCAGAGGGTTCCACAAGCCAATTATGATTGCGGGTGGTTTCGGTACTGTTAGACCTCAATTTGCTTTGAAGAACACCCCAATAACTCCAGGCTCTTGTTTAATTGTACTTGGTGGTCAATCTATGCTGATTGGTTTAGGTGGTGGTGCTGCTTCTTCTGTAGCTTCCGGTGAAGGTTCCGCCGATTTGGATTTTGCTTCTGTACAAAGAGGGAACCCCGAAATGGAACGTCGTTGCCAACAAGTGATTGACGCTTGTGTTGCCTTAGGTAACAATAATCCTATCCAATCTATTCACGATGTTGGTGCTGGTGGGTTATCCAACGCTTTGCCAGAATTGGTTCATGACAATGACTTGGGTGCTAAATTCGATATTAGAAAGGTCCTCTCCTTAGAACCTGGTATGTCACCAATGGAAATTTGGTGTAATGAATCACAAGAACGTTATGTTCTTGGTGTTTCTCCTCAAGACTTATCCATTTTCGAGGAAATCTGTAAGAGAGAAAGAGCACCATTTGCTGTCGTCGGTCACGCAACCGCTGAACAAAAATTGATTGTAGAAGATCCTCTTTTGAAAACAACTCCAATTGATTTAGAAATGCCAATTTTATTTGGTAAGCCTCCAAAGATGTCAAGAGAAACCATAACTGAAGCACTAAATCTACCAGAGGCAAATTTGAGCGAAATTCCTTCCCTACAAGATGCTATTCAAAGAGTTCTAAACTTACCATCTGTTGGCTCAAAGTCATTTTTGATTACTATTGGTGACAGATCCGTCACAGGTCTAATTGATAGGGATCAATTTGTTGGTCCTTGGCAAGTACCTGTTGCGGATGTCGGTGTTACCGGTACCTCTTTGGGTGAGACAATAATTTCCACAGGTGAAGCCATGGCTATGGGTGAAAAACCAGTTAACGCCCTAATCTCCGCATCTGCTTCCGCTAAATTATCTGTGGCAGAATCTTTATTGAACATATTCGCTGCTGATGTGAAATCTTTAAATCATATCAAGCTATCTGCTAACTGGATGTCTCCAGCCTCTCATCAAGGTGAGGGTTCTAAGTTATATGAAGCCGTTCAAGCATTAGGTCTGGATTTATGTCCTGCATTAGGTGTTGCTATCCCTGTTGGTAAGGATTCCATGTCCATGAAGATGAAATGGGATGATAAGGAAGTTACTGCACCATTGTCATTGAATATCACAGCATTTGCACCAGTTTTCAACACTAGTAAAACGTGGACTCCATTGCTAAATAGAAACACAGATGATTCTGTCCTTGTCTTGGTTGATCTATCAGCTAAACAAGAGACTAAGTCACTAGGTGCCTCTGCTTTGTTGCAAGTTTACAACCAAGTTGGTAACAAGTCGCCTACTGTGTATGATAACGCCATTTTGAAGGGTTTCTTGGAAAGTTTAATCCAATTGCATCAACAAAAGGAGGATATAGTGCTTGCCTACCATGATAGGTCTGATGGTGGTCTACTAATCACTTTACTGGAAATGGCATTTGCTTCCAGATGCGGCTTAGAAATCAACATTGACGGTGGAGACCTAGAAAGTCAATTAACAAACCTATTCAATGAAGAATTAGGTGCAGTATTCCAGATTTCTGCTAAGAACTTGAGCAAGTTCGAAAAAATCTTGAACGAGAACGGAGTTGCTAAAGAATATATTTCTATTGTTGGTAAGCCATCCTTCCAAAGCCAGGAAATCAAGATTATTAACTCCACAACAAATGATGTAATTTACGCCAATTCGAGATCTGAATTGGAGCAAACTTGGAGTAAGACATCTTACGAAATGCAGAAATTGAGAGACAATCCAAAAACAGCCGAAGAAGAGTTTGCCAGTATCACGGACGATAGAGATCCCGGTTTGCAGTATGCCCTAACATACAACCCAGCCGATGATATGAAGATCGGATTAGAATTATCCAGTCAAAGGCCAAAGGTTGCTATCTTAAGAGAGCAAGGTGTGAACGGTCAAATGGAAATGGCATGGTGCTTCCAACAAGCTGGATTCAACTCAGTGGATGTCACTATGACAGATTTGCTAGAAGGTAGGTTCCATTTGGATGACTTCATCGGTCTTGCCGCATGTGGTGGTTTCTCTTATGGTGATGTCTTAGGTGCAGGTGCGGGTTGGGCTAAATCCGTATTGTATCACGAAGGTGTGCGCTCGCAATTTTCTAAGTTCTTCAATGAAAGACAAGATACATTTGCTTTTGGTGCTTGTAATGGTTGTCAATTCTTGAGTAGATTAAAAGATATCATACCCGGGTGTGAAAACTGGCCAAGTTTCGAAAGAAATGTTAGTGAACAATATGAAGCCCGTGTATGTATGGTGCAAATATCTCAAGAAAAGGACAATTCTAGCGAGGAATCTGTTTTCTTGAATGGCATGGCAGGATCCAAATTGCCAATTGCTGTCGCACATGGTGAAGGTAAAGCAACATTTTCTAAAAGCGCTGAACAACTGGAAAAGTTCGAAAAGGATGGTTTATGTTGTATAAGGTATGTGGACAACTACGGTAACGTCACCGAAAGGTTCCCCTTCAACCCCAATGGGTCGACCAATGGTATTGCCGGTATCAAGTCACCAAATGGTAGAGTGCTTGCCATGATGCCACATCCTGAAAGAGTTTGCAGATTGGAGGCCAATTCCTGGTATCCAGAGGGCAAATACGAAGAGTGGGGTGGATACGGTCCATGGATTAGATTATTCAGATCTGCCAGAAGATGGGTCGGTTGA","protein_sequence":"MTDYILPGPKALSQFRVDNLIKDINSYTNSTSVINELRSCYIHYVNGIAQNLSEQDTKLLEVLLTYDSALDIANDPLARQLNDAVANNLPSSALGEDTYLIRVVPRSGTISPWSSKATNIAHVCGLQDKVQRIERGLALLIKTVPGFPLLENLNDISLKCVYDRMTQQLYLTEPPNTMSIFTHEEPKPLVHVPLTPKDTKQSPKDILSKANTELGLALDSGEMEYLIHAFVETMKRDPTDVELFMFAQVNSEHCRHKIFNADWTIDGIKQQFTLFQMIRNTHKLNPEYTISAYSDNAAVLDSENDAFFFAPNSTTKEWTSTKERIPLLIKVETHNHPTAVSPFPGAATGSGGEIRDEGATGRGSKTKCGLSGFSVSDLLIPGNEQPWELNIGKPYHIASALDIMIEAPLGSAAFNNEFGRPCINGYFRTLTTKVLNHQGKEEIRGFHKPIMIAGGFGTVRPQFALKNTPITPGSCLIVLGGQSMLIGLGGGAASSVASGEGSADLDFASVQRGNPEMERRCQQVIDACVALGNNNPIQSIHDVGAGGLSNALPELVHDNDLGAKFDIRKVLSLEPGMSPMEIWCNESQERYVLGVSPQDLSIFEEICKRERAPFAVVGHATAEQKLIVEDPLLKTTPIDLEMPILFGKPPKMSRETITEALNLPEANLSEIPSLQDAIQRVLNLPSVGSKSFLITIGDRSVTGLIDRDQFVGPWQVPVADVGVTGTSLGETIISTGEAMAMGEKPVNALISASASAKLSVAESLLNIFAADVKSLNHIKLSANWMSPASHQGEGSKLYEAVQALGLDLCPALGVAIPVGKDSMSMKMKWDDKEVTAPLSLNITAFAPVFNTSKTWTPLLNRNTDDSVLVLVDLSAKQETKSLGASALLQVYNQVGNKSPTVYDNAILKGFLESLIQLHQQKEDIVLAYHDRSDGGLLITLLEMAFASRCGLEINIDGGDLESQLTNLFNEELGAVFQISAKNLSKFEKILNENGVAKEYISIVGKPSFQSQEIKIINSTTNDVIYANSRSELEQTWSKTSYEMQKLRDNPKTAEEEFASITDDRDPGLQYALTYNPADDMKIGLELSSQRPKVAILREQGVNGQMEMAWCFQQAGFNSVDVTMTDLLEGRFHLDDFIGLAACGGFSYGDVLGAGAGWAKSVLYHEGVRSQFSKFFNERQDTFAFGACNGCQFLSRLKDIIPGCENWPSFERNVSEQYEARVCMVQISQEKDNSSEESVFLNGMAGSKLPIAVAHGEGKATFSKSAEQLEKFEKDGLCCIRYVDNYGNVTERFPFNPNGSTNGIAGIKSPNGRVLAMMPHPERVCRLEANSWYPEGKYEEWGGYGPWIRLFRSARRWVG"},{"created_at":"2011-05-24T19:22:02.000Z","updated_at":"2011-05-27T14:55:57.000Z","name":"Phosphoribosylglycinamide formyltransferase","uniprot_id":"P04161","uniprot_name":"PUR3_YEAST","enzyme":true,"transporter":false,"gene_name":"ADE8","num_residues":214,"molecular_weight":"23540.0","theoretical_pi":"6.39","general_function":"Involved in hydroxymethyl-, formyl- and related transferase activity","specific_function":"10-formyltetrahydrofolate + N(1)-(5-phospho-D- ribosyl)glycinamide = tetrahydrofolate + N(2)-formyl-N(1)-(5- phospho-D-ribosyl)glycinamide","reactions":[{"id":1890,"direction":"\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":2249,"direction":"\u003e","locations":null,"altext":"10-formyltetrahydrofolate + N(1)-(5-phospho-D-ribosyl)glycinamide = tetrahydrofolate + N(2)-formyl-N(1)-(5-phospho-D-ribosyl)glycinamide.","export":false,"pw_reaction_id":null,"source":null},{"id":4151,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006449","source":"Smpdb"}],"signal_regions":"None","transmembrane_regions":"None","pdb_id":null,"cellular_location":null,"genbank_gene_id":"M36585","genbank_protein_id":"171015","gene_card_id":"ADE8","chromosome_location":"chromosome 4","locus":"YDR408C","synonyms":["5'-phosphoribosylglycinamide transformylase","GAR transformylase","GART"],"enzyme_classes":["2.1.2.2"],"go_classes":[{"category":"Component","description":" Not Available"},{"category":"Function","description":" catalytic activity"},{"category":"Function","description":" phosphoribosylglycinamide formyltransferase activity"},{"category":"Function","description":" transferase activity"},{"category":"Function","description":" transferase activity, transferring one-carbon groups"},{"category":"Function","description":" methyltransferase activity"},{"category":"Function","description":" glycine hydroxymethyltransferase activity"},{"category":"Function","description":" hydroxymethyl-, formyl- and related transferase activity"},{"category":"Process","description":" metabolic process"},{"category":"Process","description":" nitrogen compound metabolic process"},{"category":"Process","description":" cellular nitrogen compound metabolic process"},{"category":"Process","description":" nucleobase, nucleoside, nucleotide and nucleic acid metabolic process"},{"category":"Process","description":" biosynthetic process"},{"category":"Process","description":" nucleobase, nucleoside and nucleotide metabolic process"},{"category":"Process","description":" nucleoside phosphate metabolic process"},{"category":"Process","description":" nucleotide metabolic process"},{"category":"Process","description":" purine nucleotide metabolic process"},{"category":"Process","description":" purine nucleotide biosynthetic process"},{"category":"Process","description":" purine nucleoside monophosphate biosynthetic process"},{"category":"Process","description":" purine ribonucleoside monophosphate biosynthetic process"},{"category":"Process","description":" IMP biosynthetic process"},{"category":"Process","description":" 'de novo' IMP biosynthetic process"}],"pfams":[{"name":"Formyl_trans_N","identifier":"PF00551"}],"pathways":[{"name":"Purine metabolism","kegg_map_id":"00230"},{"name":"One carbon pool by folate","kegg_map_id":"00670"},{"name":"tetrahydrofolate biosynthesis","kegg_map_id":null}],"gene_sequence":"ATGGCCAGAATTGTCGTATTAATTTCGGGCTCAGGTTCCAACTTGCAAGCCTTGATCGATGCCCAAAAGCAGGGCCAATTAGGCGAGGATGCTCATATTGTCTCTGTCATATCTTCCAGCAAGAAGGCATACGGGTTAACTAGGGCAGCGGACAATAATATCCCCACAAAGGTTTGTTCGCTATACCCATATACAAAGGGTATTGCGAAGGAGGACAAAGCCGCAAGGGCCAAGGCAAGATCCCAGTTTGAGAACGACCTCGCAAAACTAGTGCTCGAGGAAAAGCCTGACGTTATCATCTGCGCGGGCTGGTTATTGATCCTTGGATCTACTTTCTTGAGCCAACTGCAATCTGTGCCGATATTAAATCTGCATCCAGCGCTACCAGGTTGTTTCGATGGTACCACACACGCAATTGAAATGGCATGGCGCAAATGTCAGGACGAGAACAAGCCTCTGACGGCCGGATGCATGGTGCACTATGTCATCGAGGAGGTCGACAAGGGTGAGCCATTGGTGGTAAAAAAGCTAGAAATCATACCTGGCGAAGAAACACTAGAGCAGTACGAGCAAAGGGTACACGATGCTGAGCACATCGCGATTGTAGAAGCTACATATAAGGTTTTACAGCAGCTTCACAAATAA","protein_sequence":"MARIVVLISGSGSNLQALIDAQKQGQLGEDAHIVSVISSSKKAYGLTRAADNNIPTKVCSLYPYTKGIAKEDKAARAKARSQFENDLAKLVLEEKPDVIICAGWLLILGSTFLSQLQSVPILNLHPALPGCFDGTTHAIEMAWRKCQDENKPLTAGCMVHYVIEEVDKGEPLVVKKLEIIPGEETLEQYEQRVHDAEHIAIVEATYKVLQQLHK"}]}