{"ymdb_id":"YMDB00506","created_at":"2011-05-29T18:24:41.000Z","updated_at":"2016-09-08T18:35:33.000Z","name":"dGMP","cas":"902-04-5","state":"Solid","melting_point":null,"description":"Deoxyguanosine monophosphate (dGMP) is a deoxyribonucleotide found in DNA. dGMP consists of a phosphate group, the sugar deoxy-ribose, and the nucleobase guanosine. When found in DNA the guanosine portion of dGMP pairs with the cytidine portion of dCMP.","experimental_water_solubility":null,"experimental_logp_hydrophobicity":null,"location":"mitochondrion;cytoplasm","synthesis_reference":"Reichard, Peter.  Formation of deoxyguanosine 5'-phosphate from guanosine 5'-phosphate with enzymes from chick embryos.    Biochimica et Biophysica Acta  (1960),  41  368-9. ","chebi_id":"16192","hmdb_id":"HMDB01044","kegg_id":"C00362","pubchem_id":"65059","cs_id":"24604718","foodb_id":null,"wikipedia_link":"Deoxyguanosine_monophosphate","biocyc_id":"DGMP","iupac":"{[(2R,3S,5R)-5-(2-amino-6-oxo-6,9-dihydro-3H-purin-9-yl)-3-hydroxyoxolan-2-yl]methoxy}phosphonic acid","traditional_iupac":"deoxyguanylate","logp":"-2.7667401216018925","pka":"6.24979173848865","alogps_solubility":"2.70e+00 g/l","alogps_logp":"-1.87","alogps_logs":"-2.11","acceptor_count":"10","donor_count":"5","rotatable_bond_count":"4","polar_surface_area":"181.51999999999998","refractivity":"73.5499","polarizability":"29.716968922692246","formal_charge":"0","physiological_charge":"-1","pka_strongest_basic":"2.6193924678211005","pka_strongest_acidic":"1.2138332245786456","bioavailability":"1","number_of_rings":"3","rule_of_five":"1","ghose_filter":"0","veber_rule":"0","mddr_like_rule":"0","synonyms":["2-deoxyguanosine 5-monophosphate","2-deoxyguanosine 5-phosphate","2'-Deoxy-5'-GMP","2'-Deoxy-5'-guanylate","2'-Deoxy-5'-guanylic acid","2'-Deoxy-GMP","2'-deoxy-Guanosine 5'-(dihydrogen phosphate)","2'-deoxy-Guanosine 5'-phosphate","2'-deoxy-Guanosine phosphate","2'-Deoxyguanosine 5'-monophosphate","2'-Deoxyguanosine 5'-monophosphic acid","2'-Deoxyguanosine 5'-phosphate","2'-Deoxyguanosine 5'-phosphoric acid","2'-Deoxyguanosine 5'MP","2'-deoxyguanosine-5'-phosphate","2'-Deoxyguanylate","2'-Deoxyguanylic acid","2'-dG-5'-MP","2'-dGMP","5'-Deoxyguanylic acid","5'-DGMP","5'-Guanylic acid, 2'-deoxy-","Deoxy GMP","Deoxy-GMP","Deoxyguanosine 5'-monophosphate","Deoxyguanosine 5'-phosphate","deoxyguanosine monophosphate","deoxyguanosine-phosphate","deoxyguanylic acid","dGMP","DGP","guanine riboside","Guanosine, 2'-deoxy-, 5'-(dihydrogen phosphate)","Guanosine, 2'-deoxy-, 5'-phosphoric acid"],"pathways":[{"name":"Purine metabolism","kegg_map_id":"00230"}],"growth_conditions":[],"references":[{"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":18687109,"citation":"Nookaew, I., Jewett, M. C., Meechai, A., Thammarongtham, C., Laoteng, K., Cheevadhanarak, S., Nielsen, J., Bhumiratana, S. (2008). \"The genome-scale metabolic model iIN800 of Saccharomyces cerevisiae and its validation: a scaffold to query lipid metabolism.\" BMC Syst Biol 2:71."}],"proteins":[{"created_at":"2011-05-26T19:13:38.000Z","updated_at":"2011-05-26T19:13:38.000Z","name":"Uncharacterized mitochondrial carrier YIL006W","uniprot_id":"P40556","uniprot_name":"YIA6_YEAST","enzyme":false,"transporter":true,"gene_name":null,"num_residues":373,"molecular_weight":"41954.0","theoretical_pi":"8.83","general_function":"Involved in binding","specific_function":null,"reactions":[],"signal_regions":"None","transmembrane_regions":"81-101;142-162;177-199;236-256;281-297;336-358","pdb_id":null,"cellular_location":"Mitochondrion inner membrane; Multi-pass membrane protein","genbank_gene_id":"Z38113","genbank_protein_id":"558398","gene_card_id":null,"chromosome_location":null,"locus":"YIL006W","synonyms":[],"enzyme_classes":[],"go_classes":[{"category":"Component","description":" organelle membrane"},{"category":"Component","description":" organelle inner membrane"},{"category":"Component","description":" mitochondrial inner membrane"},{"category":"Component","description":" cell part"},{"category":"Component","description":" membrane"},{"category":"Function","description":" transporter activity"},{"category":"Function","description":" binding"},{"category":"Process","description":" transmembrane transport"},{"category":"Process","description":" establishment of localization"},{"category":"Process","description":" transport"}],"pfams":[{"name":"Mito_carr","identifier":"PF00153"}],"pathways":[],"gene_sequence":"ATGACACAGACTGATAATCCTGTCCCCAACTGCGGTTTACTGCCCGAGCAGCAGTATTGCTCTGCAGACCATGAAGAGCCACTGTTGTTGCATGAAGAACAATTGATATTCCCTGATCATTCCTCCCAACTGTCCTCAGCAGATATCATCGAGCCCATCAAGATGAACAGCAGTACTGAGTCAATTATAGGGACAACGCTGCGAAAGAAATGGGTACCACTATCCTCAACTCAGATCACAGCTCTTTCCGGCGCATTTGCTGGATTCTTATCAGGTGTGGCAGTATGTCCCCTCGATGTTGCCAAAACGCGATTGCAAGCACAAGGACTACAAACTAGGTTCGAGAACCCCTACTATAGGGGGATAATGGGGACATTAAGTACTATAGTAAGAGACGAAGGCCCGCGGGGCCTCTACAAAGGGCTGGTACCGATTGTCCTGGGCTACTTCCCAACCTGGATGATATACTTCTCCGTGTATGAATTCAGCAAAAAGTTCTTTCACGGCATCTTCCCACAGTTTGATTTTGTTGCTCAGTCATGTGCTGCAATCACGGCAGGCGCTGCATCTACCACCTTGACCAACCCAATCTGGGTTGTGAAGACAAGACTTATGCTGCAATCAAACCTCGGTGAGCACCCCACACATTACAAAGGCACTTTCGATGCATTCAGAAAGCTATTTTATCAGGAAGGGTTTAAAGCATTATATGCGGGGCTGGTCCCCTCATTATTAGGGCTATTTCATGTGGCTATCCATTTCCCTATATACGAAGATTTGAAGGTAAGATTTCACTGCTATTCTCGGGAGAACAACACCAACTCCATCAACTTGCAACGGTTGATCATGGCATCGTCCGTCTCTAAGATGATTGCATCAGCAGTAACATATCCGCACGAAATTTTACGAACCAGAATGCAACTGAAATCAGATATACCAGATTCCATTCAACGACGTCTGTTCCCCCTCATTAAAGCAACTTATGCACAAGAGGGACTAAAGGGATTTTATTCTGGATTTACTACTAACCTAGTACGAACCATTCCGGCCTCGGCAATCACTCTAGTGTCCTTTGAGTATTTCAGAAACCGCCTAGAAAATATTAGCACTATGGTAATTTAA","protein_sequence":"MTQTDNPVPNCGLLPEQQYCSADHEEPLLLHEEQLIFPDHSSQLSSADIIEPIKMNSSTESIIGTTLRKKWVPLSSTQITALSGAFAGFLSGVAVCPLDVAKTRLQAQGLQTRFENPYYRGIMGTLSTIVRDEGPRGLYKGLVPIVLGYFPTWMIYFSVYEFSKKFFHGIFPQFDFVAQSCAAITAGAASTTLTNPIWVVKTRLMLQSNLGEHPTHYKGTFDAFRKLFYQEGFKALYAGLVPSLLGLFHVAIHFPIYEDLKVRFHCYSRENNTNSINLQRLIMASSVSKMIASAVTYPHEILRTRMQLKSDIPDSIQRRLFPLIKATYAQEGLKGFYSGFTTNLVRTIPASAITLVSFEYFRNRLENISTMVI"},{"created_at":"2011-05-27T00:02:34.000Z","updated_at":"2011-07-22T17:54:35.000Z","name":"Guanylate kinase","uniprot_id":"P15454","uniprot_name":"KGUA_YEAST","enzyme":true,"transporter":false,"gene_name":"GUK1","num_residues":187,"molecular_weight":"20637.19922","theoretical_pi":"7.34","general_function":"Involved in protein binding","specific_function":"Essential for recycling GMP and indirectly, cGMP","reactions":[{"id":1443,"direction":"\u003c\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":1622,"direction":"\u003c\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":1623,"direction":"\u003c\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":2618,"direction":"\u003e","locations":null,"altext":"ATP + GMP = ADP + GDP.","export":false,"pw_reaction_id":null,"source":null},{"id":14313,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006812","source":"Smpdb"}],"signal_regions":"None","transmembrane_regions":"None","pdb_id":"1EX7","cellular_location":null,"genbank_gene_id":"L04683","genbank_protein_id":"171625","gene_card_id":"GUK1","chromosome_location":"chromosome 4","locus":"YDR454C","synonyms":["GMP kinase"],"enzyme_classes":["2.7.4.8"],"go_classes":[{"category":"Component","description":" Not Available"},{"category":"Function","description":" transferase activity, transferring phosphorus-containing groups"},{"category":"Function","description":" phosphotransferase activity, phosphate group as acceptor"},{"category":"Function","description":" guanylate kinase activity"},{"category":"Function","description":" catalytic activity"},{"category":"Function","description":" transferase activity"},{"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":" metabolic process"}],"pfams":[{"name":"Guanylate_kin","identifier":"PF00625"}],"pathways":[{"name":"Purine metabolism","kegg_map_id":"00230"},{"name":"purine nucleotides de novo biosynthesis","kegg_map_id":null}],"gene_sequence":"ATGTCCCGTCCTATCGTAATTTCTGGCCCAAGTGGTACAGGTAAATCTACACTGTTGAAGAAATTGTTCGCTGAATACCCAGATTCTTTCGGGTTTAGTGTTTCATCCACTACTAGAACCCCAAGAGCTGGCGAAGTAAACGGTAAGGACTATAACTTTGTCTCCGTAGATGAATTCAAATCTATGATTAAGAACAATGAATTCATTGAATGGGCGCAATTCTCCGGTAACTACTATGGTAGTACTGTCGCTTCCGTCAAACAAGTCAGTAAATCTGGTAAGACTTGTATTTTAGATATTGATATGCAGGGTGTCAAATCTGTCAAGGCTATCCCAGAGTTAAATGCCAGGTTTTTGTTTATTGCTCCACCATCGGTCGAGGATTTGAAAAAAAGATTAGAAGGTAGAGGTACGGAGACCGAAGAATCCATCAACAAGAGGTTAAGCGCCGCTCAAGCTGAATTGGCATATGCTGAGACAGGTGCCCATGACAAAGTTATTGTCAATGATGATTTGGACAAGGCCTACAAGGAATTGAAGGATTTTATCTTTGCAGAAAAATGA","protein_sequence":"MSRPIVISGPSGTGKSTLLKKLFAEYPDSFGFSVSSTTRTPRAGEVNGKDYNFVSVDEFKSMIKNNEFIEWAQFSGNYYGSTVASVKQVSKSGKTCILDIDMQGVKSVKAIPELNARFLFIAPPSVEDLKKRLEGRGTETEESINKRLSAAQAELAYAETGAHDKVIVNDDLDKAYKELKDFIFAEK"}]}