{"ymdb_id":"YMDB00199","created_at":"2011-05-29T16:06:10.000Z","updated_at":"2016-09-08T18:35:10.000Z","name":"Allantoic acid","cas":"99-16-1","state":"Solid","melting_point":"180-181 oC","description":"Allantoate is an intermediate in the allantoin degradation to glyoxylate pathway. It is the end product of allantoicase [EC:3.5.3.4], an enzyme involved in uric acid degradation in the purine metabolism. Allantoin is rich in nitrogen, and many organisms are able to degrade it and recycle it. Yeast can use allantoin as sole nitrogen source by degrading it to urea, CO2 and glyoxylate. Urea is further degraded to ammonia. [Biocyc PWY-5694] ","experimental_water_solubility":null,"experimental_logp_hydrophobicity":null,"location":"Cytoplasm;Extracellular","synthesis_reference":"Hermanowicz, Witold.  Allantoic acid. Formation of allantoic acid from allantoin.    Roczniki Chemii  (1948),  22  159-80. ","chebi_id":"30837","hmdb_id":"HMDB01209","kegg_id":"C00499","pubchem_id":"203","cs_id":"198","foodb_id":null,"wikipedia_link":"Allantoic_acid","biocyc_id":"ALLANTOATE","iupac":"2,2-bis(carbamoylamino)acetic acid","traditional_iupac":"allantoic acid","logp":"-2.572494902","pka":"12.932920209741354","alogps_solubility":"6.70e+00 g/l","alogps_logp":"-2.12","alogps_logs":"-1.42","acceptor_count":"4","donor_count":"5","rotatable_bond_count":"3","polar_surface_area":"147.54","refractivity":"35.100300000000004","polarizability":"14.589637369325168","formal_charge":"0","physiological_charge":"-1","pka_strongest_basic":"-3.113917117608129","pka_strongest_acidic":"3.2398093493303493","bioavailability":"1","number_of_rings":"0","rule_of_five":"1","ghose_filter":"0","veber_rule":"0","mddr_like_rule":"0","synonyms":["Allantoate","Allantoic acid","bis[(aminocarbonyl)amino]acetate","Diureidoacetate","Diureidoacetic acid"],"pathways":[{"name":"Purine metabolism","kegg_map_id":"00230"}],"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":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":4604238,"citation":"Lawther, R. P., Riemer, E., Chojnacki, B., Cooper, T. G. (1974). \"Clustering of the genes for allantoin degradation in Saccharomyces cerevisiae.\" J Bacteriol 119:461-468."}],"proteins":[{"created_at":"2011-05-24T19:44:14.000Z","updated_at":"2011-07-22T17:54:09.000Z","name":"Allantoicase","uniprot_id":"P25335","uniprot_name":"ALLC_YEAST","enzyme":true,"transporter":false,"gene_name":"DAL2","num_residues":343,"molecular_weight":"38713.5","theoretical_pi":"6.33","general_function":"Involved in allantoicase activity","specific_function":"Utilization of purines as secondary nitrogen sources, when primary sources are limiting","reactions":[{"id":1310,"direction":"\u003c\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":2268,"direction":"\u003e","locations":"Cytoplasmic","altext":"Allantoate + H(2)O = (S)-ureidoglycolate + urea.","export":false,"pw_reaction_id":null,"source":null}],"signal_regions":"None","transmembrane_regions":"None","pdb_id":"1SG3","cellular_location":"Cytoplasmic","genbank_gene_id":"M64720","genbank_protein_id":"171368","gene_card_id":"DAL2","chromosome_location":"chromosome 9","locus":"YIR029W","synonyms":["Allantoate amidinohydrolase"],"enzyme_classes":["3.5.3.4"],"go_classes":[{"category":"Component","description":" Not Available"},{"category":"Function","description":" hydrolase activity"},{"category":"Function","description":" hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds"},{"category":"Function","description":" hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines"},{"category":"Function","description":" allantoicase activity"},{"category":"Function","description":" catalytic activity"},{"category":"Process","description":" Not Available"}],"pfams":[{"name":"Allantoicase","identifier":"PF03561"}],"pathways":[{"name":"Purine metabolism","kegg_map_id":"00230"}],"gene_sequence":"ATGAAGTTTTTTAGTTTGGCAGATGAGGCAGAATTTAAGTCAATAATCATTTCAAAAAACAAAGCAGTAGATGTTATAGGATCTAAGTTAGGTGGTCAAGTGGTTTCTTTTTCAGATGAATGGTTTGCTTCTGCTGAAAATTTAATTCAGCCAACTGCTCCTATAAGGGATCCTACCAGATTTGTTCATTCAGGCGCATGGTACGACGGCTGGGAAACACGAAGACATAATGAGATGGAATACGATTGGGTTATCATCAAGATGGGAGTCGCTGCTGCCCATATTATTGGTGGTGAAATTGACACTGCGTTTTTCAATGGTAATCATGCACCATTTGTATCAATAGAGGCGCTCTATGACGAGGGCGAAGAAGGTAATATAGTGGAAGATGACTCGCGTTGGGTTGAGATTGTTGAGAAATTTGAGTGTGGTCCTTCGCAAAGGCATCTTTTCGTTAGAGGCAACGGCCTTACTAAAGAAAGGTTTACTCACATCAAGCTGAAGATGTACCCCGATGGAGGAATCGCCAGATTTAGATTATACGGAAGAGTTGTTCCTCCAGAACTCAAAACGAAGGATCATATAATTGACTTGGCTTATGTTTGCAATGGTGCTGTCGCTTTAAAGTATTCTGACCAACACTTCGGTTCAGTTGATAATTTGCTACTGCCAGGTCGAGGTCATGATATGTCGGACGGCTGGGAAACCAAAAGATCGAGACAACCAGGTCATACTGATTGGGCGGTAATTCAACTGGGCAGGGAGTCTTCTTTCATTGAGAAGATTATTGTTGATACGGCACACTTCAGGGGGAACTTCCCTCAGTTCATTACCGTGGAAGGTTGCTTGAAGGAGTCAGAATCAAGTGAGAACACTGGTGAAGGAACATGGGTAGAGCTAGTTGGTAAGTCAAAGACGGGGCCTGACAAAGAACATGTGTATGAAATACGTAAGAGTATAAGAGTCTCCCATGTCAAATTAACGATTATTCCAGATGGAGGAGTGAAAAGAATAAGAGTTTGGGGGTACTGA","protein_sequence":"MKFFSLADEAEFKSIIISKNKAVDVIGSKLGGQVVSFSDEWFASAENLIQPTAPIRDPTRFVHSGAWYDGWETRRHNEMEYDWVIIKMGVAAAHIIGGEIDTAFFNGNHAPFVSIEALYDEGEEGNIVEDDSRWVEIVEKFECGPSQRHLFVRGNGLTKERFTHIKLKMYPDGGIARFRLYGRVVPPELKTKDHIIDLAYVCNGAVALKYSDQHFGSVDNLLLPGRGHDMSDGWETKRSRQPGHTDWAVIQLGRESSFIEKIIVDTAHFRGNFPQFITVEGCLKESESSENTGEGTWVELVGKSKTGPDKEHVYEIRKSIRVSHVKLTIIPDGGVKRIRVWGY"},{"created_at":"2011-05-27T03:48:46.000Z","updated_at":"2011-07-22T17:54:09.000Z","name":"Allantoinase","uniprot_id":"P32375","uniprot_name":"ALN_YEAST","enzyme":true,"transporter":false,"gene_name":"DAL1","num_residues":460,"molecular_weight":"50125.89844","theoretical_pi":"5.85","general_function":"Involved in allantoinase activity","specific_function":"Utilization of purines as secondary nitrogen sources, when primary sources are limiting","reactions":[{"id":1311,"direction":"\u003c\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":2746,"direction":"\u003e","locations":"Cytoplasmic","altext":"(S)-allantoin + H(2)O = allantoate.","export":false,"pw_reaction_id":null,"source":null}],"signal_regions":"None","transmembrane_regions":"None","pdb_id":null,"cellular_location":"Cytoplasmic","genbank_gene_id":"Z38061","genbank_protein_id":"557833","gene_card_id":"DAL1","chromosome_location":"chromosome 9","locus":"YIR027C","synonyms":[],"enzyme_classes":["3.5.2.5"],"go_classes":[{"category":"Component","description":" Not Available"},{"category":"Function","description":" endonuclease activity"},{"category":"Function","description":" endodeoxyribonuclease activity"},{"category":"Function","description":" binding"},{"category":"Function","description":" endodeoxyribonuclease activity, producing 5'-phosphomonoesters"},{"category":"Function","description":" ion binding"},{"category":"Function","description":" allantoinase activity"},{"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":" hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds"},{"category":"Function","description":" hydrolase activity, acting on ester bonds"},{"category":"Function","description":" hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides"},{"category":"Function","description":" catalytic activity"},{"category":"Function","description":" nuclease activity"},{"category":"Process","description":" nitrogen compound metabolic process"},{"category":"Process","description":" amine metabolic process"},{"category":"Process","description":" allantoin metabolic process"},{"category":"Process","description":" allantoin catabolic process"},{"category":"Process","description":" metabolic process"}],"pfams":[{"name":"Amidohydro_1","identifier":"PF01979"}],"pathways":[{"name":"Purine metabolism","kegg_map_id":"00230"}],"gene_sequence":"ATGCCTATCAATGCCATCACTTCCGACCATGTCATTATCAATGGTGCAAATAAACCTGCGACTATTGTGTATTCGACCGAATCAGGCACGATTCTGGATGTTTTAGAAGGCTCCGTGGTTATGGAGAAAACTGAGATAACCAAATATGAAATACATACGCTGGAGAACGTATCTCCATGTACAATTCTGCCTGGACTTGTGGACTCTCATGTTCACTTGAACGAGCCCGGTAGGACTAGCTGGGAAGGATTCGAAACTGGAACTCAAGCTGCTATTAGTGGCGGGGTCACAACGGTGGTTGATATGCCGCTAAATGCTATTCCTCCCACAACAAATGTGGAGAATTTCCGAATTAAATTGGAAGCTGCTGAGGGCCAAATGTGGTGCGATGTTGGGTTTTGGGGTGGACTGGTACCACACAACTTGCCAGACTTAATTCCGCTTGTCAAAGCTGGCGTTCGCGGGTTCAAAGGATTCTTGCTTGATTCTGGTGTGGAAGAATTCCCTCCAATTGGCAAAGAATATATAGAAGAAGCCTTGAAGGTCTTAGCCGAGGAGGATACCATGATGATGTTTCATGCTGAGTTGCCCAAGGCACATGAGGACCAACAGCAACCCGAGCAAAGCCATCGTGAATATTCTTCGTTTTTGTCCTCGAGGCCGGATTCTTTCGAAATAGACGCCATCAATTTGATTCTCGAATGCTTGAGAGCCAGAAATGGACCAGTTCCTCCTGTACATATAGTTCATCTGGCATCAATGAAAGCAATTCCCTTGATCAGAAAGGCACGTGCGTCAGGGCTACCAGTCACAACAGAGACTTGTTTCCACTATTTGTGTATTGCTGCAGAGCAGATCCCAGACGGAGCCACCTACTTTAAATGTTGTCCACCCATCCGCTCTGAGTCTAATCGCCAAGGCCTATGGGACGCTTTGCGTGAAGGTGTTATAGGCTCAGTAGTGAGCGACCATTCGCCATGCACCCCTGAGTTGAAGAACTTGCAAAAAGGTGACTTTTTCGATTCTTGGGGAGGAATCGCTTCCGTCGGACTAGGTTTGCCATTGATGTTTACCCAAGGCTGCTCTTTGGTCGATATCGTTACATGGTGCTGTAAAAATACATCCCATCAGGTAGGACTATCTCACCAAAAAGGCACTATAGCTCCCGGGTACGATGCTGATTTGGTGGTATTTGATACTGCAAGTAAACATAAAATAAGTAATTCAAGTGTCTACTTCAAAAACAAATTGACTGCCTACAACGGGATGACGGTCAAGGGCACAGTTTTGAAAACCATATTAAGAGGCCAGGTGGTATATACGAATGCCAACGGAGTCTCGAAAACACCATTGGGTCAAACTTTGCTTGATTCTAGACGTTAA","protein_sequence":"MPINAITSDHVIINGANKPATIVYSTESGTILDVLEGSVVMEKTEITKYEIHTLENVSPCTILPGLVDSHVHLNEPGRTSWEGFETGTQAAISGGVTTVVDMPLNAIPPTTNVENFRIKLEAAEGQMWCDVGFWGGLVPHNLPDLIPLVKAGVRGFKGFLLDSGVEEFPPIGKEYIEEALKVLAEEDTMMMFHAELPKAHEDQQQPEQSHREYSSFLSSRPDSFEIDAINLILECLRARNGPVPPVHIVHLASMKAIPLIRKARASGLPVTTETCFHYLCIAAEQIPDGATYFKCCPPIRSESNRQGLWDALREGVIGSVVSDHSPCTPELKNLQKGDFFDSWGGIASVGLGLPLMFTQGCSLVDIVTWCCKNTSHQVGLSHQKGTIAPGYDADLVVFDTASKHKISNSSVYFKNKLTAYNGMTVKGTVLKTILRGQVVYTNANGVSKTPLGQTLLDSRR"},{"created_at":"2011-05-27T09:05:37.000Z","updated_at":"2011-06-05T01:30:13.000Z","name":"Allantoate permease","uniprot_id":"P15365","uniprot_name":"DAL5_YEAST","enzyme":false,"transporter":true,"gene_name":"DAL5","num_residues":543,"molecular_weight":"60849.5","theoretical_pi":"8.76","general_function":"Involved in transporter activity","specific_function":"Component of the allantoate transport system","reactions":[],"signal_regions":"None","transmembrane_regions":"81-97;124-145;155-171;179-200;214-237;249-269;318-342;353-377;390-411;418-435;454-472;483-504","pdb_id":null,"cellular_location":"Membrane; Multi-pass membrane protein","genbank_gene_id":"M24098","genbank_protein_id":"295602","gene_card_id":"DAL5","chromosome_location":"chromosome 10","locus":"YJR152W","synonyms":[],"enzyme_classes":[],"go_classes":[{"category":"Component","description":" intrinsic to membrane"},{"category":"Component","description":" integral to membrane"},{"category":"Component","description":" cell part"},{"category":"Component","description":" membrane part"},{"category":"Function","description":" transporter activity"},{"category":"Process","description":" transmembrane transport"},{"category":"Process","description":" establishment of localization"},{"category":"Process","description":" transport"}],"pfams":[{"name":"MFS_1","identifier":"PF07690"}],"pathways":[],"gene_sequence":"ATGTCAGCGGATGCTAGTACAAATTCGAATGCTTCCCTAGACGAAAAAAATTTAAACATCACTTCAGAAGCTGAAATCAAGAATGAAGACGTAACCGCGGAGCCAGTTCTAAGCACGGTACTATCACCCAACGGTAAAATTGTCTACATCAGTGACAAGGTTGATGAGGCCATGAAGTTGGCTGAAGAAGCCAAAGAAATCGAAGTGACACCAGAAGAAGATAGAAAACTTCGTTGGAAGATCGACTATTGTATGTTTCCTTTGATGTGTATATTGTATGCTGTTCAATTTATGGACAAGATTTCCACTAGTTCAGCGGCGGTCATGGGATTAAGAACTGACTTGAAAATGCATGGTGACCAGTATTCATGGGTTACTTCCGCCTTTTATTTCGGCTATCTATTTATGAACCTAGGCCCGGTACAGTTCATTTTCCAAAGGACCAGTCACATGTCAAAAATGCTTGCGGTTTTTATTGTCATATGGGGAATGTTATTAGCTTTACATGCAGCTCCAACAGTTAAGTATCCTTCTTTCATTGTTTTGAGAGTACTTTTAGGTTGCGCAGAAAGTGTTGTCACACCTTGCTTTACCATTATCACTGCTCAATACTGGAAGACAGAGGAACAATTCACAAGAGTATCAATTTGGTTTGGTATGAACGGTCTTGGCTCCATCCTGATCAACGCAATTGCGTACGGTGTTTACATTCACCAGGATTCTTATGCTATTAAAGGCTGGAGAACCTTATTTGTCATTACTGGTGTGATAACAATCTTCATTGGTATCTTGATATTCCTGTGGATCCCTGACGATCCATCAAAAGCAAGGTTTTTATCTAAAAGAGAGAAATTAATGGTTGTCCAAAGAATTAGGTCTAACCAACAAGGGTTCGGTAATCACGAGATCAAAAAATACCAAATTATAGAGGCGTTGAAGGATGTTAGGACGTGGTTATATTTCCTCTTTACTGTGAGCTCTAATATTCCTAATGGTGGTATTTCAAGTTTTATGAGTATTCTATTGAATAGTGATTTTGGATATTCATCAAAGGAAACCCTATTAATGGGTTTACCTACAGGTGCTGTTGAATTGGTAGGTTGTCCACTTTTTGGTATTCTAGCAGTTTATGCAGCCAATAAGAAGATACCATTTTGGAAATATAAGTTGAGTTGGGCTATTTTTGCAGCTGTCTTAGCATTGATTGCTAGCTGCATGTTAGGGTTTGCAACAAACTCCAAAAAAGCAAGACTGGCTGGTGCTTACCTGTGGTACATCTCGCCCGTCTCATTTATTTGCGTACTTTCCAATATCAGTGCGAATTCCTCGGGATATAGTAAAAAATGGACTGTATCTTCAATAAACTTAGTAGCATATGCTGCAGCTAACTTGGCAGGACCACAAACCTTTATTGCTAAGCAGGCTCCTAAATATCATGGCGCTAAGGTCGCTATGGTCGTATGTTATGCTGTTATGATCGTGCTTCTATCTATACTGCTCATCGTCAATTTAAGGGAAAACAAGAGACGTGATAAGATAGCTGCCGAGAGAGGGTTCCCTGAAGAAACAGAGAATTTAGAGTTTTCTGATTTGACTGATTTTGAAAATCCAAATTTCAGATACACTTTATGA","protein_sequence":"MSADASTNSNASLDEKNLNITSEAEIKNEDVTAEPVLSTVLSPNGKIVYISDKVDEAMKLAEEAKEIEVTPEEDRKLRWKIDYCMFPLMCILYAVQFMDKISTSSAAVMGLRTDLKMHGDQYSWVTSAFYFGYLFMNLGPVQFIFQRTSHMSKMLAVFIVIWGMLLALHAAPTVKYPSFIVLRVLLGCAESVVTPCFTIITAQYWKTEEQFTRVSIWFGMNGLGSILINAIAYGVYIHQDSYAIKGWRTLFVITGVITIFIGILIFLWIPDDPSKARFLSKREKLMVVQRIRSNQQGFGNHEIKKYQIIEALKDVRTWLYFLFTVSSNIPNGGISSFMSILLNSDFGYSSKETLLMGLPTGAVELVGCPLFGILAVYAANKKIPFWKYKLSWAIFAAVLALIASCMLGFATNSKKARLAGAYLWYISPVSFICVLSNISANSSGYSKKWTVSSINLVAYAAANLAGPQTFIAKQAPKYHGAKVAMVVCYAVMIVLLSILLIVNLRENKRRDKIAAERGFPEETENLEFSDLTDFENPNFRYTL"}]}