{"ymdb_id":"YMDB00961","created_at":"2011-06-03T15:54:56.000Z","updated_at":"2016-09-12T20:56:49.000Z","name":"S-Methyl-5-thio-alpha-D-ribose 1-phosphate","cas":null,"state":"Solid","melting_point":null,"description":"S-Methyl-5-thio-alpha-D-ribose 1-phosphate is converted to methionine during the S-methyl-5-thio-alpha-D-ribose 1-phosphate degradation pathway. [Biocyc PWY-6755]","experimental_water_solubility":null,"experimental_logp_hydrophobicity":null,"location":"Cytoplasm","synthesis_reference":null,"chebi_id":"27859","hmdb_id":"HMDB00963","kegg_id":"C04188","pubchem_id":"45266677","cs_id":"10160733","foodb_id":null,"wikipedia_link":null,"biocyc_id":"CPD-444","iupac":"{[(2R,3R,4S,5S)-3,4-dihydroxy-5-[(methylsulfanyl)methyl]oxolan-2-yl]oxy}phosphonic acid","traditional_iupac":"[(2R,3R,4S,5S)-3,4-dihydroxy-5-[(methylsulfanyl)methyl]oxolan-2-yl]oxyphosphonic acid","logp":"-0.9432991613333329","pka":"6.219263382330931","alogps_solubility":"2.87e+01 g/l","alogps_logp":"-1.16","alogps_logs":"-0.96","acceptor_count":"6","donor_count":"4","rotatable_bond_count":"4","polar_surface_area":"116.45000000000002","refractivity":"51.667399999999994","polarizability":"22.384275965480278","formal_charge":"0","physiological_charge":"-2","pka_strongest_basic":"-3.659561681639288","pka_strongest_acidic":"1.1557362714105084","bioavailability":"1","number_of_rings":"1","rule_of_five":"1","ghose_filter":"0","veber_rule":"0","mddr_like_rule":"0","synonyms":["5-methylthio-d-ribose 1-phosphate","5-S-methyl-1-O-phosphono-5-thio-alpha-D-ribofuranose","S-Methyl-5-thio-5-deoxy-D-ribose 1-phosphate","S-Methyl-5-thio-alpha-D-ribose 1-phosphate","S-Methyl-5-thio-D-ribose 1-phosphate","s5-methyl-5-thio-d-ribose 1-phosphate"],"pathways":[{"name":"Cysteine and methionine metabolism","kegg_map_id":"00270"}],"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":14506228,"citation":"Subhi, A. L., Diegelman, P., Porter, C. W., Tang, B., Lu, Z. J., Markham, G. D., Kruger, W. D. (2003). \"Methylthioadenosine phosphorylase regulates ornithine decarboxylase by production of downstream metabolites.\" J Biol Chem 278:49868-49873."}],"proteins":[{"created_at":"2011-05-27T03:18:34.000Z","updated_at":"2011-07-22T17:53:49.000Z","name":"Multicopy enhancer of UAS2","uniprot_id":"Q07938","uniprot_name":"MEU1_YEAST","enzyme":true,"transporter":false,"gene_name":"MEU1","num_residues":337,"molecular_weight":"37856.30078","theoretical_pi":"7.89","general_function":"Involved in catalytic activity","specific_function":"Seems to be implicated in the regulation of the expression of the ADH2 gene","reactions":[{"id":1200,"direction":"\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":2714,"direction":"\u003e","locations":null,"altext":"S-methyl-5'-thioadenosine + phosphate = adenine + S-methyl-5-thio-alpha-D-ribose 1-phosphate","export":false,"pw_reaction_id":null,"source":null},{"id":3795,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006314","source":"Smpdb"}],"signal_regions":"None","transmembrane_regions":"None","pdb_id":null,"cellular_location":null,"genbank_gene_id":"X90564","genbank_protein_id":"975224","gene_card_id":"MEU1","chromosome_location":"chromosome 12","locus":"YLR017W","synonyms":[],"enzyme_classes":["2.4.2.28"],"go_classes":[{"category":"Component","description":" Not Available"},{"category":"Function","description":" transferase activity, transferring pentosyl groups"},{"category":"Function","description":" catalytic activity"},{"category":"Function","description":" transferase activity"},{"category":"Function","description":" transferase activity, transferring glycosyl groups"},{"category":"Process","description":" nucleobase, nucleoside and nucleotide metabolic process"},{"category":"Process","description":" nucleoside metabolic process"},{"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"}],"pfams":[{"name":"PNP_UDP_1","identifier":"PF01048"}],"pathways":[{"name":"Methionine metabolism and salvage","kegg_map_id":null}],"gene_sequence":"ATGAACAGGATTAAGAATACATTTTCTGTTGCTAAGAGATTAAAACTAAGCAAAGTTATGACGAACTCAGAATTACCGAGCATATTCGAAGGAACTGTTGATTTAGGGATTATTGGTGGTACAGGTTTATATAACCTTGACTGTCTGGAGCCCATCGCTTTGGTTCCACCCATGGTAACACCATGGGGTACCACATCGTCTCCTGTCACAATCTCTCAGTTCGTAGGAACTAACAGCCACTTTCACGTTGCGTTCATAGCCAGACACGGTATTAACCACGAATACCCACCCACTAAAGTCCCATTTAGAGCAAACATGGCGGCCTTAAAGAACTTAAATTGTAAAGCCGTTCTTTCTTTTAGTGCCGTGGGGTCTTTACAACCCCATATAAAGCCTAGAGATTTTGTGTTACCACAGCAAATAATCGACAGAACTAAAGGCATAAGACATTCTTCATATTTCAACGATGAAGGCTTGGTAGGTCACGTTGGTTTCGGACAGCCGTTCTCTCAAAAATTCGCAGAGTATATCTATCAATTCAAGAACGAGATAACAAATCCTGAATCCGAAGAACCGTGCCATTTGCATTACGACAAGGATATGACCGTTGTGTGTATGGAAGGCCCACAATTCTCCACGCGCGCTGAATCCAAGATGTACAGAATGTTTGGTGGCCATGTTATTAACATGAGTGTTATTCCAGAAGCCAAATTGGCGCGTGAGTGTGAGCTGCCTTACCAGATGATTTGTATGTCTACCGATTACGACGCATGGAGAGATGAGGCAGAACCTGTTACCGTAGAAACCGTTATTGGTAATTTGACGAATAATGGGCGCAATGCAAATATTTTAGCTTCTAAGATCATCGTCTCAATGGCCAAGGAAATCCCAGAGTTCATGCATACTGGCGATGGGCTGCGCGGTTCCATCAAGAAATCTATCTCTACCAAACCAGAGGCTATGTCCAAGGAAACCTTAGAAAGACTAAGATACTTATTTCCAAACTATTGGTAA","protein_sequence":"MNRIKNTFSVAKRLKLSKVMTNSELPSIFEGTVDLGIIGGTGLYNLDCLEPIALLPPMVTPWGTTSSPVTISQFVGTNSHFHVAFIARHGINHEYPPTKVPFRANMAALKNLNCKAVLSFSAVGSLQPHIKPRDFVLPQQIIDRTKGIRHSSYFNDEGLVGHVGFGQPFSQKFAEYIYQFKNEITNPESEEPCHLHYDKDMTVVCMEGPQFSTRAESKMYRMFGGHVINMSVIPEAKLARECELPYQMICMSTDYDAWRDEAEPVTVETVIGNLTNNGRNANILASKIIVSMAKEIPEFMHTGDGLRGSIKKSISTKPEAMSKETLERLRYLFPNYW"}]}