{"ymdb_id":"YMDB00163","created_at":"2011-05-29T16:02:54.000Z","updated_at":"2016-09-08T18:35:07.000Z","name":"5-Amino-6-(5'-phosphoribosylamino)uracil","cas":null,"state":null,"melting_point":null,"description":"5-Amino-6-(5'-phosphoribosylamino)uracil is an intermediate in flavin biosynthesis pathway found in bacteria and plants. Riboflavin (vitamin B2) is the precursor for the essential flavin cofactors FMN and FAD, which are used in a wide variety of redox reactions. [Biocyc RIBOSYN2-PWY]","experimental_water_solubility":null,"experimental_logp_hydrophobicity":null,"location":"Cytoplasm","synthesis_reference":null,"chebi_id":"18337","hmdb_id":null,"kegg_id":"C01268","pubchem_id":"439462","cs_id":"388566","foodb_id":null,"wikipedia_link":null,"biocyc_id":null,"iupac":"{[(2R,3S,4R,5R)-5-[(5-amino-2,6-dioxo-1,2,3,6-tetrahydropyrimidin-4-yl)amino]-3,4-dihydroxyoxolan-2-yl]methoxy}phosphonic acid","traditional_iupac":"[(2R,3S,4R,5R)-5-[(5-amino-2,6-dioxo-1,3-dihydropyrimidin-4-yl)amino]-3,4-dihydroxyoxolan-2-yl]methoxyphosphonic acid","logp":"-3.7151084476666667","pka":"6.248803119147884","alogps_solubility":"3.64e+00 g/l","alogps_logp":"-1.84","alogps_logs":"-1.99","acceptor_count":"10","donor_count":"8","rotatable_bond_count":"5","polar_surface_area":"212.7","refractivity":"79.87729999999998","polarizability":"29.551298197476896","formal_charge":"0","physiological_charge":"-2","pka_strongest_basic":"-3.6640269455988914","pka_strongest_acidic":"1.2255771173733017","bioavailability":"0","number_of_rings":"2","rule_of_five":"0","ghose_filter":"0","veber_rule":"0","mddr_like_rule":"0","synonyms":["5-Amino-6-(5-phosphoribosylamino)uracil","5-Amino-6-(5'-phosphoribosylamino)uracil","5-Amino-6-(ribosylamino)-2,4-(1H,3H)-pyrimidinedione 5'-phosphate"],"pathways":[{"name":"Riboflavin metabolism","kegg_map_id":"00740"}],"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":"2011-05-26T18:16:28.000Z","updated_at":"2011-07-22T17:53:40.000Z","name":"Bifunctional protein RIB2","uniprot_id":"Q12362","uniprot_name":"RIB2_YEAST","enzyme":true,"transporter":false,"gene_name":"RIB2","num_residues":591,"molecular_weight":"67035.29688","theoretical_pi":"6.51","general_function":"Involved in zinc ion binding","specific_function":"Involved in riboflavin biosynthesis. Converts 2,5- diamino-6-(ribosylamino)-4(3H)-pyrimidinone 5'-phosphate into 5- amino-6-(ribosylamino)-2,4(1H,3H)-pyrimidinedione 5'-phosphate","reactions":[{"id":1137,"direction":"\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":2520,"direction":"\u003e","locations":"Cytoplasm;Nucleus. Mitochondrion;Nucleus","altext":"tRNA uridine = tRNA pseudouridine.","export":false,"pw_reaction_id":null,"source":null},{"id":2521,"direction":"\u003e","locations":"Cytoplasm","altext":"2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine + H(2)O = 5-amino-6-(5-phosphoribosylamino)uracil + NH(3).","export":false,"pw_reaction_id":null,"source":null},{"id":14110,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006541","source":"Smpdb"}],"signal_regions":"None","transmembrane_regions":"None","pdb_id":null,"cellular_location":"Cytoplasm","genbank_gene_id":"Z21618","genbank_protein_id":"642221","gene_card_id":"RIB2","chromosome_location":"chromosome 15","locus":"YOL066C","synonyms":["tRNA pseudouridine synthase 8, cytoplasmic","tRNA pseudouridylate synthase 8","tRNA-uridine isomerase 8","Diaminohydroxyphosphoribosylaminopyrimidine deaminase","DRAP deaminase","Riboflavin-specific deaminase"],"enzyme_classes":["5.4.99.-","3.5.4.26"],"go_classes":[{"category":"Component","description":" Not Available"},{"category":"Function","description":" binding"},{"category":"Function","description":" ion binding"},{"category":"Function","description":" cation binding"},{"category":"Function","description":" metal ion binding"},{"category":"Function","description":" transition metal ion binding"},{"category":"Function","description":" zinc ion binding"},{"category":"Function","description":" hydrolase activity"},{"category":"Function","description":" isomerase activity"},{"category":"Function","description":" intramolecular transferase activity"},{"category":"Function","description":" nucleic acid binding"},{"category":"Function","description":" catalytic activity"},{"category":"Function","description":" pseudouridine synthase activity"},{"category":"Function","description":" RNA binding"},{"category":"Process","description":" macromolecule metabolic process"},{"category":"Process","description":" RNA modification"},{"category":"Process","description":" pseudouridine synthesis"},{"category":"Process","description":" cellular macromolecule metabolic process"},{"category":"Process","description":" RNA metabolic process"},{"category":"Process","description":" metabolic process"}],"pfams":[{"name":"dCMP_cyt_deam_1","identifier":"PF00383"},{"name":"PseudoU_synth_2","identifier":"PF00849"}],"pathways":[{"name":"Riboflavin metabolism","kegg_map_id":"00740"}],"gene_sequence":"ATGGAGGACTCTAATAATGAAGCCAGCGATGACTTCAACAACTTATTAAACAAAGAAATTGAGTCTGCAAAGGAAGTGAAGTTAAGAAAATTCGCGAACAGGAATAATAATAGGAACGAAAACAGTTCCAAAGTCAAAGATGCGAGTGGATTCAGACTGAGAGTTATTCAAACCGATGGGCACAAAACTAAAAAGACAGACCCTGATTATGAAGTGACAATTGATGGACCCTTAAGGAAGATTGAGCCTTATTTTTTCACTTATAAAACTTTCTGTAAGGAGAGGTGGAGAGATCGTAAGTTGGTGGATGTATTCGTGAGCGAATTCAGGGATCGAGAGCCCAGCTATTATTCCAAAACCATTGCAGAGGGAAAAGTATACTTAAACGATGAACCTGCAAACCTTGATACCATCATTCGTGACGGTGATCTGATCACACATAAAGTACATCGACATGAACCGCCAGTCACATCTAAACCAATAGATATTGTGTTTGAAGACGAAGATATCCTTGTCATTGATAAACCCAGCAGTATTCCAGTGCACCCAACGGGCAGATACAGATTCAATACCATTACAAAAATGCTAGAAAGACAGCTAGGTTATTCAGTACATCCATGTAATAGACTAGACAAGCCAACTAGTGGACTAATGTTTTTAGCCAAGACTCCATTAGGTGCAGATAGAATGGGAGACCAAATGAAAGCGAGGGAAGTCACCAAAGAATACGTAGCCCGCGTGAAGGGCGAGTTCCCTATAGGTATAGTAGAGGTAGATAAGCCTGTCAGATCTGTTAACCCTAAAGTTGCACTAAACGCTGTTTGCGAGATGAGCGATGAAAACGCTAAACATGCCAAGACCGTTTTCCAAAGGGTTAGCTATGATGGACAGACGAGTATTGTAAAGTGTAAACCATTGACAGGTAGAACTCACCAAATAAGAGTCCATTTGCAGTACTTGGGATTTCCCATAGCAAATGACCCTATATACTCGAACCCAGATATCTGGGGTCCAGATTTGGGCCGCGGTGGACTTCAAAACTATGATGACATCGTTCTGAAACTAGACGCTATTGGCAAGACTAATCCTGCAGAGAGCTGGATTCATCCTCATAGCGAGGGTGAATACTTGCTTGGCCGTCAGTGCGAAGAATGCGAGGCTGAAATGTACACAGATCCCGGTACTAATGATCTCGACCTCTGGCTGCATGCCTTCCGGTACGAGTCATTGGAAAGAAATTCGGATACGCAAAAACCTCTCTGGAGTTATAGAACAAAATACCCTGAATGGGCCTTAGAGCCACATCGCCGATATATGGAAATGGCCGTTAAGGAAGCTGGTAAGTGTGGCCCGACAAAGACTGCTTTTAGTGTTGGTGCCGTTCTTGTTCATGGAACTCAAGTACTTGCCACAGGATATTCAAGAGAGCTACCAGGAAACACTCATGCAGAACAGTGTGCTTTGATAAAGTACTCGCAGTTACACCCGAACTGTCCCACTATAGTCCCTATGGGAACAGTGCTCTATACAACCATGGAACCCTGTTCCTTCAGGCTAAGTGGCAATGAGCCTTGCTGCGATAGAATCCTGGCCACCCAAGGTGCCATTGGTACTGTCTTCGTGGGGGTTATGGAGCCCGATACATTTGTTAAAAACAATACAAGTTTGAACAAGCTGGAATCGCACGGTGTGAACTACATACAAATACCAGGCTACGAGGAGGAGTGCACCATCATTGCCTTCAAAGGCCACGATAATAGTGACGACAAAGCTTAG","protein_sequence":"MEDSNNEASDDFNNLLNKEIESAKEVKLRKFANRNNNRNENSSKVKDASGFRLRVIQTDGHKTKKTDPDYEVTIDGPLRKIEPYFFTYKTFCKERWRDRKLVDVFVSEFRDREPSYYSKTIAEGKVYLNDEPANLDTIIRDGDLITHKVHRHEPPVTSKPIDIVFEDEDILVIDKPSSIPVHPTGRYRFNTITKMLERQLGYSVHPCNRLDKPTSGLMFLAKTPLGADRMGDQMKAREVTKEYVARVKGEFPIGIVEVDKPVRSVNPKVALNAVCEMSDENAKHAKTVFQRVSYDGQTSIVKCKPLTGRTHQIRVHLQYLGFPIANDPIYSNPDIWGPDLGRGGLQNYDDIVLKLDAIGKTNPAESWIHPHSEGEYLLGRQCEECEAEMYTDPGTNDLDLWLHAFRYESLERNSDTQKPLWSYRTKYPEWALEPHRRYMEMAVKEAGKCGPTKTAFSVGAVLVHGTQVLATGYSRELPGNTHAEQCALIKYSQLHPNCPTIVPMGTVLYTTMEPCSFRLSGNEPCCDRILATQGAIGTVFVGVMEPDTFVKNNTSLNKLESHGVNYIQIPGYEEECTIIAFKGHDNSDDKA"},{"created_at":"2011-05-27T02:42:59.000Z","updated_at":"2011-07-22T17:53:41.000Z","name":"5-amino-6-(5-phosphoribosylamino)uracil reductase","uniprot_id":"P33312","uniprot_name":"RIB7_YEAST","enzyme":true,"transporter":false,"gene_name":"RIB7","num_residues":244,"molecular_weight":"27116.0","theoretical_pi":"6.78","general_function":"Involved in 5-amino-6-(5-phosphoribosylamino)uracil reductase activity","specific_function":"5-amino-6-(5-phosphoribitylamino)uracil + NADP(+) = 5-amino-6-(5-phosphoribosylamino)uracil + NADPH","reactions":[{"id":1138,"direction":"\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":2689,"direction":"\u003e","locations":null,"altext":"5-amino-6-(5-phospho-D-ribitylamino)uracil + NADP(+) = 5-amino-6-(5-phospho-D-ribosylamino)uracil + NADPH.","export":false,"pw_reaction_id":null,"source":null},{"id":14109,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006540","source":"Smpdb"}],"signal_regions":"None","transmembrane_regions":"None","pdb_id":null,"cellular_location":null,"genbank_gene_id":"AY557713","genbank_protein_id":"45269317","gene_card_id":"RIB7","chromosome_location":"chromosome 2","locus":"YBR153W","synonyms":["HTP reductase"],"enzyme_classes":["1.1.1.193"],"go_classes":[{"category":"Component","description":" Not Available"},{"category":"Function","description":" binding"},{"category":"Function","description":" nucleotide binding"},{"category":"Function","description":" oxidoreductase activity"},{"category":"Function","description":" oxidoreductase activity, acting on CH-OH group of donors"},{"category":"Function","description":" oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor"},{"category":"Function","description":" NADP or NADPH binding"},{"category":"Function","description":" 5-amino-6-(5-phosphoribosylamino)uracil reductase activity"},{"category":"Function","description":" catalytic activity"},{"category":"Process","description":" nitrogen compound metabolic process"},{"category":"Process","description":" riboflavin metabolic process"},{"category":"Process","description":" riboflavin biosynthetic process"},{"category":"Process","description":" metabolic process"}],"pfams":[{"name":"RibD_C","identifier":"PF01872"}],"pathways":[{"name":"Riboflavin metabolism","kegg_map_id":"00740"}],"gene_sequence":"ATGTCTTTGACACCACTGTGTGAAGATTTACCACAATTTCTGCAAAACTATCTACCGAATGCTGGTCAAACGGAAAATACCATTGTGCCCTTTGTCACACTAACTTATGCTCAATCGCTCGACGCGAGAGTATCTAGGGGCCCTGGAGTGAGGACTACAATTTCACATCCCGAGACCAAAACAATGACGCATTATTTGAGACATCATCACGATGGAATACTCGTAGGAAGTGGAACAGTGCTAGCTGATAATCCTGGATTGAATTGTAAATGGGGTCCCGATCCGGCTGCAAATTCCCCAAGGCCAATAATAATAGATACAAAGCAAAAGTGGCGATTTGATGGTTCAAAAATGCAAGAACTTTTTATTAAACGACAGGGTAAGCCGCCAATCGTTGTTGTCACAAGTGAGCCCATTATAAAAGAACAACATGTAGACTACGCAATTTGTCCAATAAATGATACTACGAAATTGGTCGATTGGAAGAAATTGTTTGAGATATTAAAAGAAGAATTCAATATAAGGTCAGTAATGGTTGAAGGAGGTGCCAATGTAATAAATCAGTTGTTGCTGAGGAGCGATATTGTCAACAGTCTTATAATAACTATTGGATCAACATTTCTGGGTAGCTCAGGCACCGAAGTTAGCCCACCCCAAACAGTAAATTTAAAGGATATGTCATGGTGGAAGGGCATTACCGATGTGGTGCTTTGTGCGAGACTGGCCGATGACTAA","protein_sequence":"MSLTPLCEDLPQFLQNYLPNAGQTENTIVPFVTLTYAQSLDARVSRGPGVRTTISHPETKTMTHYLRHHHDGILVGSGTVLADNPGLNCKWGPDPAANSPRPIIIDTKQKWRFDGSKMQELFIKRQGKPPIVVVTSEPIIKEQHVDYAICPINDTTKLVDWKKLFEILKEEFNIRSVMVEGGANVINQLLLRSDIVNSLIITIGSTFLGSSGTEVSPPQTVNLKDMSWWKGITDVVLCARLADD"}]}