{"ymdb_id":"YMDB00124","created_at":"2011-05-29T15:59:11.000Z","updated_at":"2016-09-08T18:35:03.000Z","name":"urea-1-carboxylic acid","cas":"625-78-5","state":null,"melting_point":null,"description":"Urea-1-carboxylic acid is an intermediate of the urea degradation pathway of urea into ammonia and CO2. Urea-1-carboxylic acid is a product of the enzyme urea carboxylase. [Biocyc PWY-5703]","experimental_water_solubility":null,"experimental_logp_hydrophobicity":null,"location":"cytoplasm","synthesis_reference":null,"chebi_id":"9889","hmdb_id":null,"kegg_id":"C01010","pubchem_id":"150833","cs_id":"132943","foodb_id":null,"wikipedia_link":null,"biocyc_id":null,"iupac":"carbamoylcarbamic acid","traditional_iupac":"allophanic acid","logp":"-0.9018284759999999","pka":"14.752806874182085","alogps_solubility":"7.20e+01 g/l","alogps_logp":"-1.29","alogps_logs":"-0.16","acceptor_count":"3","donor_count":"3","rotatable_bond_count":"0","polar_surface_area":"92.41999999999999","refractivity":"19.563","polarizability":"8.038045032007751","formal_charge":"0","physiological_charge":"-1","pka_strongest_basic":"-9.854722082242152","pka_strongest_acidic":"3.2047720627923737","bioavailability":"1","number_of_rings":"0","rule_of_five":"1","ghose_filter":"0","veber_rule":"0","mddr_like_rule":"0","synonyms":["Allophanate","Allophanic acid","Urea-1-carboxylate"],"pathways":[{"name":"Arginine and proline metabolism","kegg_map_id":"00330"}],"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."},{"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":4571226,"citation":"Whitney, P. A., Cooper, T. (1973). \"Urea carboxylase from Saccharomyces cerevisiae. Evidence for a minimal two-step reaction sequence.\" J Biol Chem 248:325-330."},{"pubmed_id":4551940,"citation":"Whitney, P. A., Cooper, T. G. (1972). \"Urea carboxylase and allophanate hydrolase. Two components of adenosine triphosphate:urea amido-lyase in Saccharomyces cerevisiae.\" J Biol Chem 247:1349-1353."}],"proteins":[{"created_at":"2011-05-24T19:43:43.000Z","updated_at":"2011-07-22T17:54:09.000Z","name":"Urea amidolyase","uniprot_id":"P32528","uniprot_name":"DUR1_YEAST","enzyme":true,"transporter":false,"gene_name":"DUR1","num_residues":1835,"molecular_weight":"201830.0","theoretical_pi":"5.3","general_function":"Involved in carbon-nitrogen ligase activity, with glutamine as amido-N-donor","specific_function":"Hydrolysis of urea to ammonia and CO(2)","reactions":[{"id":1312,"direction":"\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":2035,"direction":"\u003c\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":2266,"direction":"\u003e","locations":null,"altext":"ATP + urea + HCO(3)(-) = ADP + phosphate + urea-1-carboxylate.","export":false,"pw_reaction_id":null,"source":null},{"id":2267,"direction":"\u003e","locations":null,"altext":"Urea-1-carboxylate + H(2)O = 2 CO(2) + 2 NH(3).","export":false,"pw_reaction_id":null,"source":null}],"signal_regions":"None","transmembrane_regions":"None","pdb_id":null,"cellular_location":null,"genbank_gene_id":"M64926","genbank_protein_id":"173122","gene_card_id":"DUR1","chromosome_location":null,"locus":"YBR208C","synonyms":["Urea carboxylase","Allophanate hydrolase"],"enzyme_classes":["6.3.4.6","3.5.1.54"],"go_classes":[{"category":"Component","description":" Not Available"},{"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":" binding"},{"category":"Function","description":" nucleoside binding"},{"category":"Function","description":" purine nucleoside binding"},{"category":"Function","description":" adenyl nucleotide binding"},{"category":"Function","description":" adenyl ribonucleotide binding"},{"category":"Function","description":" ATP binding"},{"category":"Function","description":" vitamin binding"},{"category":"Function","description":" biotin binding"},{"category":"Function","description":" catalytic activity"},{"category":"Process","description":" metabolic process"}],"pfams":[{"name":"CPSase_L_chain","identifier":"PF00289"},{"name":"CPSase_L_D2","identifier":"PF02786"},{"name":"Amidase","identifier":"PF01425"},{"name":"AHS1","identifier":"PF02682"},{"name":"AHS2","identifier":"PF02626"},{"name":"Biotin_carb_C","identifier":"PF02785"},{"name":"Biotin_lipoyl","identifier":"PF00364"}],"pathways":[{"name":"Arginine and proline metabolism","kegg_map_id":"00330"}],"gene_sequence":"ATGACAGTTAGTTCCGATACAACTGCTGAAATATCGTTAGGTTGGTCAATCCAAGACTGGATTGATTTCCACAAGTCATCAAGCTCCCAGGCTTCACTAAGGCTTCTTGAATCACTACTAGACTCTCAAAATGTTGCGCCAGTCGATAATGCGTGGATATCGCTAATTTCAAAGGAAAATTTACTGCACCAATTCCAAATTTTAAAGAGCAGAGAAAATAAAGAAACTCTACCTCTCTACGGTGTCCCTATTGCTGTTAAGGACAACATCGACGTTAGAGGTCTACGCACCACCGCTGCATGTCCATCCTTTGCATATGAGCCTTCCAAAGACTCTAAAGTAGTAGAACTACTAAGAAATGCAGGTGCAATAATCGTGGGTAAGACAAACTTGGACCAATTTGCCACAGGATTAGTCGGCACACGGTCTCCATATGGGAAAACACCTTGCGCTTTTAGCAAAGAGCATGTATCTGGTGGTTCCTCCGCTGGGTCAGCATCGGTGGTCGCCAGAGGTATCGTACCAATTGCATTGGGTACTGATACAGCAGGTTCTGGTAGAGTCCCAGCCGCCTTGAACAACCTGATTGGCCTAAAGCCAACAAAGGGCGTCTTTTCCTGTCAAGGTGTAGTTCCCGCTTGTAAATCTTTAGACTGCGTCTCCATCTTTGCATTAAACCTAAGTGATGCTGAACGCTGCTTCCGCATCATGTGCCAGCCAGATCCTGATAATGATGAATATTCTAGACCCTATGTTTCCAACCCAAAGAAAAATTTTTCAAGCAATGTAACGATTGCTATTCCTAAAAATATCCCATGGTATGGTGAAACCAAGAATCCTGTACTGTTTTCCAATGCTGTCGAAAATCTATCAAGAACGGGCGCTAACGTCATAGAAATTGATTTTGAGCCTCTTTTAGAGTTAGCTCGCTGTTTATACGAAGGTACTTGGGTGGCCGAGCGTTATCAAGCTATTCAATCGTTTTTGGACAGTAAACCACCAAAGGAATCTTTGGACCCTACTGTTATTTCAATTATAGAAGGGGCCAAGAAATACAGTGCAGTAGACTGCTTCAGTTTTGAATACAAAAGACAAGGCATCTTGCAAAAAGTGAGACGACTTCTCGAATCAGTCGATGTCTTGTGTGTGCCCACATGTCCCTTAAATCCTACTATGCAACAAGTTGCGGATGAACCAGTCCTAGTCAATTCAAGACAAGGCACATGGACTAATTTTGTCAACTTGGCAGATTTGGCAGCCCTTGCTGTTCCCGCAGGGTTCCGAGACGATGGTTTGCCAAATGGTATTACTTTAATCGGTAAAAAATTCACAGATTACGCACTATTAGAGTTGGCTAACCGCTATTTCCAAAATATGTTCCCCAACGGTTCCAGAACATACGGTACTTTTACCTCTTCTTCAGTAAAGCCAGCAAACGATCAATTAGTGGGACCAGACTATGACCCATCTACGTCCATAAAATTGGCTGTTGTCGGTGCACATCTTAAGGGTCTGCCTCTACATTGGCAATTGGAAAAGGTCAATGCAACATATTTATGTACAACAAAAACATCAAAAGCTTACCAGCTTTTTGCTTTGCCCAAAAATGGACCAGTTTTAAAACCTGGTTTGAGAAGAGTTCAAGATAGCAATGGCTCTCAAATCGAATTAGAAGTGTACAGTGTTCCAAAAGAACTGTTCGGTGCTTTTATTTCCATGGTTCCTGAACCATTGGGAATAGGTTCAGTGGAGTTAGAATCTGGTGAATGGATCAAATCCTTTATTTGTGAAGAATCTGGTTACAAAGCCAAAGGTACAGTTGATATCACAAAGTATGGTGGATTTAGAGCATATTTTGAAATGTTGAAGAAAAAAGAGTCCCAAAAGAAGAAGTTATTTGATACCGTGTTAATTGCCAATAGAGGTGAAATTGCCGTTCGTATTATCAAGACATTAAAAAAATTGGGTATTAGATCAGTTGCAGTTTATTCCGACCCTGATAAATATTCTCAACACGTTACTGATGCAGATGTTTCTGTACCCCTTCATGGCACAACCGCAGCCCAAACTTATTTAGACATGAATAAGATCATAGATGCCGCTAAGCAAACTAATGCACAGGCCATTATTCCTGGTTATGGTTTCTTGTCGGAAAATGCGGATTTTTCTGATGCGTGCACCAGTGCTGGCATTACCTTTGTTGGTCCTTCGGGAGATATTATCAGAGGTTTAGGGTTAAAACATTCTGCTAGACAGATTGCACAGAAGGCTGGCGTTCCTCTAGTGCCAGGCTCTTTGCTTATCACATCAGTTGAAGAGGCTAAGAAAGTCGCAGCGGAATTGGAATACCCAGTTATGGTGAAGTCAACTGCTGGTGGCGGTGGTATTGGTTTGCAGAAAGTCGATTCTGAAGAGGACATCGAGCATATTTTTGAGACTGTGAAACATCAAGGTGAAACATTTTTCGGTGACGCTGGTGTATTTCTGAAACGGTTTATCGAAAATGCCAGGCATGTTGAAGTCCAACTTATGGGAGATGGTTTTGGTAAGGCCATTGCTTTGGGCGAACGTGATTGTTCTTTACAGCGTCGTAACCAAAAAGTTATCGAAGAAACTCCTGCACCAAATTTGCCAGAAAAGACGAGGTTGGCGTTAAGAAAGGCAGCTGAAAGTTTGGGATCTTTATTGAATTACAAGTGTGCTGGTACGGTTGAATTTATTTACGATGAGAAAAAGGACGAGTTTTACTTTTTAGAAGTTAATACAAGATTACAAGTTGAACATCCAATAACAGAAATGGTTACAGGGTTAGACTTGGTCGAGTGGATGATCAGGATTGCCGCTAATGATGCACCTGATTTTGATTCTACAAAGGTAGAAGTCAATGGGGTTTCAATGGAGGCACGTTTATATGCTGAAAATCCATTGAAAAATTTCAGACCTTCTCCAGGTTTACTTGTCGATGTGAAATTTCCTGATTGGGCAAGAGTGGATACTTGGGTTAAGAAAGGTACTAATATTTCTCCCGAATATGATCCAACATTGGCCAAAATTATCGTTCATGGGAAAGACCGTGATGATGCAATTTCCAAGTTAAATCAAGCGTTAGAAGAAACAAAAGTTTACGGATGTATTACTAACATTGACTACCTGAAGTCTATCATTACCAGTGATTTCTTTGCTAAAGCAAAAGTTTCTACAAACATTTTGAACTCTTATCAATATGAGCCTACCGCCATCGAAATTACTTTGCCCGGTGCACACACTAGTATTCAGGATTACCCCGGTAGAGTTGGGTACTGGAGAATTGGTGTTCCGCCCTCTGGTCCAATGGACGCATATTCGTTTAGATTGGCGAACAGAATTGTTGGTAATGACTACAGGACTCCTGCCATTGAAGTAACGTTGACTGGTCCATCCATCGTTTTCCATTGTGAAACTGTCATTGCCATTACTGGTGGTACCGCTCTATGTACATTAGACGGCCAAGAAATTCCCCAACACAAACCGGTCGAAGTTAAGAGGGGATCTACTTTATCCATTGGCAAGTTGACAAGCGGCTGTAGAGCATACTTAGGTATCAGGGGTGGCATTGATGTGCCTAAATACTTGGGCTCTTATTCTACTTTCACTCTAGGAAATGTCGGTGGATACAATGGAAGGGTGCTAAAACTTGGAGACGTACTATTCTTACCAAGCAATGAAGAAAATAAATCAGTTGAGTGCCTTCCACAGAATATTCCTCAATCATTAATTCCTCAAATTTCCGAAACTAAGGAATGGAGAATTGGTGTAACATGTGGTCCCCATGGGTCTCCAGATTTTTTTAAACCTGAGTCCATCGAAGAATTTTTCAGTGAGAAGTGGAAGGTTCATTACAACTCCAATAGATTTGGTGTCCGTTTGATTGGACCTAAACCTAAGTGGGCAAGAAGTAATGGTGGTGAAGGTGGTATGCATCCTTCAAACACTCACGATTACGTTTATTCTCTGGGTGCAATTAATTTCACGGGTGATGAGCCAGTTATTATTACTTGCGATGGTCCTTCCTTAGGTGGTTTTGTGTGTCAAGCTGTTGTCCCAGAAGCAGAACTGTGGAAGGTTGGACAGGTTAAACCCGGTGATTCCATTCAGTTTGTGCCACTTTCTTACGAAAGCTCGAGATCCTTAAAGGAATCTCAGGAAGTTGCAATTAAATCATTGGATGGTACTAAGTTAAGGCGCTTAGACTCTGTTTCAATTTTACCATCATTCGAAACGCCTATTCTTGCACAAATGGAAAAAGTGAATGAGCTTTCACCAAAGGTTGTATACAGACAAGCAGGTGATCGTTATGTTTTGGTGGAATACGGTGATAATGAAATGAATTTTAATATTTCCTATAGAATTGAATGCCTGATCTCCCTTGTGAAAAAGAATAAGACTATTGGTATTGTTGAAATGTCCCAAGGTGTTAGATCTGTGTTGATAGAATTTGATGGTTACAAAGTCACTCAAAAAGAATTGCTTAAAGTATTGGTGGCATATGAAACAGAAATCCAGTTTGATGAAAATTGGAAGATAACTTCTAATATAATAAGATTACCGATGGCTTTCGAAGACTCGAAGACTTTGGCATGTGTTCAAAGGTATCAAGAAACAATTCGTTCGTCTGCTCCATGGTTGCCAAATAACGTTGATTTCATTGCCAATGTAAATGGAATTTCAAGGAATGAAGTTTATGATATGTTGTATTCTGCCAGATTTATGGTTTTAGGTTTAGGTGATGTCTTCCTAGGGTCGCCTTGTGCTGTTCCATTAGATCCTCGTCACAGATTTTTGGGAAGCAAGTACAACCCAAGTAGAACATATACAGAAAGAGGTGCAGTCGGTATTGGCGGTATGTATATGTGCATATATGCTGCTAACAGTCCTGGTGGGTACCAATTAGTGGGTAGAACAATACCAATTTGGGACAAACTATGTCTGGCCGCATCTTCTGAGGTTCCGTGGTTGATGAACCCATTTGACCAAGTCGAATTTTACCCAGTTTCTGAAGAAGATTTGGATAAAATGACTGAAGATTGTGATAATGGTGTTTATAAAGTCAATATCGAAAAGAGTGTTTTTGATCATCAAGAATACTTGAGATGGATCAACGCAAACAAAGATTCCATCACAGCATTCCAGGAGGGCCAGCTTGGTGAAAGAGCAGAGGAATTTGCCAAATTGATTCAAAATGCAAACTCTGAACTAAAAGAAAGTGTCACAGTCAAACCTGACGAGGAAGAAGACTTCCCAGAAGGTGCAGAAATTGTATATTCTGAGTATTCTGGGCGTTTTTGGAAATCCATAGCATCTGTTGGAGATGTTATTGAAGCAGGTCAAGGGCTACTAATTATTGAAGCCATGAAAGCGGAAATGATTATATCCGCTCCTAAATCGGGTAAGATTATCAAGATTTGCCATGGCAATGGTGATATGGTTGATTCTGGTGACATAGTGGCCGTCATAGAGACATTGGCATGA","protein_sequence":"MTVSSDTTAEISLGWSIQDWIDFHKSSSSQASLRLLESLLDSQNVAPVDNAWISLISKENLLHQFQILKSRENKETLPLYGVPIAVKDNIDVRGLPTTAACPSFAYEPSKDSKVVELLRNAGAIIVGKTNLDQFATGLVGTRSPYGKTPCAFSKEHVSGGSSAGSASVVARGIVPIALGTDTAGSGRVPAALNNLIGLKPTKGVFSCQGVVPACKSLDCVSIFALNLSDAERCFRIMCQPDPDNDEYSRPYVSNPLKKFSSNVTIAIPKNIPWYGETKNPVLFSNAVENLSRTGANVIEIDFEPLLELARCLYEGTWVAERYQAIQSFLDSKPPKESLDPTVISIIEGAKKYSAVDCFSFEYKRQGILQKVRRLLESVDVLCVPTCPLNPTMQQVADEPVLVNSRQGTWTNFVNLADLAALAVPAGFRDDGLPNGITLIGKKFTDYALLELANRYFQNIFPNGSRTYGTFTSSSVKPANDQLVGPDYDPSTSIKLAVVGAHLKGLPLHWQLEKVNATYLCTTKTSKAYQLFALPKNGPVLKPGLRRVQDSNGSQIELEVYSVPKELFGAFISMVPEPLGIGSVELESGEWIKSFICEESGYKAKGTVDITKYGGFRAYFEMLKKKESQKKKLFDTVLIANRGEIAVRIIKTLKKLGIRSVAVYSDPDKYSQHVTDADVSVPLHGTTAAQTYLDMNKIIDAAKQTNAQAIIPGYGFLSENADFSDACTSAGITFVGPSGDIIRGLGLKHSARQIAQKAGVPLVPGSLLITSVEEAKKVAAELEYPVMVKSTAGGGGIGLQKVDSEEDIEHIFETVKHQGETFFGDAGVFLERFIENARHVEVQLMGDGFGKAIALGERDCSLQRRNQKVIEETPAPNLPEKTRLALRKAAESLGSLLNYKCAGTVEFIYDEKKDEFYFLEVNTRLQVEHPITEMVTGLDLVEWMIRIAANDAPDFDSTKVEVNGVSMEARLYAENPLKNFRPSPGLLVDVKFPDWARVDTWVKKGTNISPEYDPTLAKIIVHGKDRDDAISKLNQALEETKVYGCITNIDYLKSIITSDFFAKAKVSTNILNSYQYEPTAIEITLPGAHTSIQDYPGRVGYWRIGVPPSGPMDAYSFRLANRIVGNDYRTPAIEVTLTGPSIVFHCETVIAITGGTALCTLDGQEIPQHKPVEVKRGSTLSIGKLTSGCRAYLGIRGGIDVPKYLGSYSTFTLGNVGGYNGRVLKLGDVLFLPSNEENKSVECLPQNIPQSLIPQISETKEWRIGVTCGPHGSPDFFKPESIEEFFSEKWKVHYNSNRFGVRLIGPKPKWARSNGGEGGMHPSNTHDYVYSLGAINFTGDEPVIITCDGPSLGGFVCQAVVPEAELWKVGQVKPGDSIQFVPLSYESSRSLKESQDVAIKSLDGTKLRRLDSVSILPSFETPILAQMEKVNELSPKVVYRQAGDRYVLVEYGDNEMNFNISYRIECLISLVKKNKTIGIVEMSQGVRSVLIEFDGYKVTQKELLKVLVAYETEIQFDENWKITSNIIRLPMAFEDSKTLACVQRYQETIRSSAPWLPNNVDFIANVNGISRNEVYDMLYSARFMVLGLGDVFLGSPCAVPLDPRHRFLGSKYNPSRTYTERGAVGIGGMYMCIYAANSPGGYQLVGRTIPIWDKLCLAASSEVPWLMNPFDQVEFYPVSEEDLDKMTEDCDNGVYKVNIEKSVFDHQEYLRWINANKDSITAFQEGQLGERAEEFAKLIQNANSELKESVTVKPDEEEDFPEGAEIVYSEYSGRFWKSIASVGDVIEAGQGLLIIEAMKAEMIISAPKSGKIIKICHGNGDMVDSGDIVAVIETLA"}]}