{"ymdb_id":"YMDB00040","created_at":"2011-05-29T15:50:50.000Z","updated_at":"2016-09-08T18:34:56.000Z","name":"5-Methylthioribose 1-phosphate","cas":"72843-83-5","state":"Solid","melting_point":"","description":"5-Methylthioribose 1-phosphate is an intermediate in methionine biosynthesis.","experimental_water_solubility":"","experimental_logp_hydrophobicity":"","location":"cytoplasm","synthesis_reference":"Della Ragione, Fulvio; Carteni-Farina, Maria; Gragnaniello, Vincenzo; Schettino, Maria Irene; Zappia, Vincenzo.  Purification and characterization of 5'-deoxy-5'-methylthioadenosine phosphorylase from human placenta.    Journal of Biological Chemistry  (1","chebi_id":null,"hmdb_id":null,"kegg_id":null,"pubchem_id":"465","cs_id":null,"foodb_id":null,"wikipedia_link":null,"biocyc_id":null,"iupac":"{[(3R,4S)-3,4-dihydroxy-5-[(methylsulfanyl)methyl]oxolan-2-yl]oxy}phosphonic acid","traditional_iupac":"[(3R,4S)-3,4-dihydroxy-5-[(methylsulfanyl)methyl]oxolan-2-yl]oxyphosphonic acid","logp":"-0.943299161333333","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":"51.6674","polarizability":"22.52691291319853","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":["1-phospho-5-S-methylthioribose","1-phosphomethylthioribose","5-Methylthio-5-deoxy-D-ribose 1-phosphate","5-methylthio-5-deoxy-D-ribose-1-phosphate","5-methylthio-D-ribose-1-phosphate","5-Methylthioribose 1-phosphate","5-Methylthioribose 1-phosphic acid","5-methylthioribose-1-phosphate","D-ribofuranoside","S-methyl-5-thio-alpha-D-ribose 1-phosphate","S5-methyl-5-thio-D-ribose-1-phosphate"],"pathways":[{"name":"Cysteine and methionine metabolism","kegg_map_id":"00270"},{"name":"Methionine metabolism and salvage","kegg_map_id":null}],"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":15215245,"citation":"Bumann, M., Djafarzadeh, S., Oberholzer, A. E., Bigler, P., Altmann, M., Trachsel, H., Baumann, U. (2004). \"Crystal structure of yeast Ypr118w, a methylthioribose-1-phosphate isomerase related to regulatory eIF2B subunits.\" J Biol Chem 279:37087-37094."},{"pubmed_id":18625006,"citation":"Pirkov, I., Norbeck, J., Gustafsson, L., Albers, E. (2008). \"A complete inventory of all enzymes in the eukaryotic methionine salvage pathway.\" FEBS J 275:4111-4120."},{"pubmed_id":3906034,"citation":"Marchitto, K. S., Ferro, A. J. (1985). \"The metabolism of 5'-methylthioadenosine and 5-methylthioribose 1-phosphate in Saccharomyces cerevisiae.\" J Gen Microbiol 131:2153-2164."}],"proteins":[{"created_at":"2011-05-24T21:10:24.000Z","updated_at":"2011-05-29T05:06:15.000Z","name":"Methylthioribose-1-phosphate isomerase","uniprot_id":"Q06489","uniprot_name":"MTNA_YEAST","enzyme":true,"transporter":false,"gene_name":"MRI1","num_residues":411,"molecular_weight":"45019.89844","theoretical_pi":"4.64","general_function":"Involved in cellular metabolic process","specific_function":"Catalyzes the interconversion of methylthioribose-1- phosphate (MTR-1-P) into methylthioribulose-1-phosphate (MTRu-1- P)","reactions":[{"id":2364,"direction":"\u003e","locations":null,"altext":"S-methyl-5-thio-alpha-D-ribose 1-phosphate = S-methyl-5-thio-D-ribulose 1-phosphate.","export":false,"pw_reaction_id":null,"source":null},{"id":3794,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006313","source":"Smpdb"}],"signal_regions":"None","transmembrane_regions":"None","pdb_id":"1W2W","cellular_location":null,"genbank_gene_id":"U40828","genbank_protein_id":"1066474","gene_card_id":"MRI1","chromosome_location":"chromosome 16","locus":"YPR118W","synonyms":["M1Pi","MTR-1-P isomerase","S-methyl-5-thioribose-1-phosphate isomerase"],"enzyme_classes":["5.3.1.23"],"go_classes":[{"category":"Component","description":" Not Available"},{"category":"Function","description":" Not Available"},{"category":"Process","description":" metabolic process"},{"category":"Process","description":" biosynthetic process"},{"category":"Process","description":" cellular metabolic process"},{"category":"Process","description":" cellular biosynthetic process"}],"pfams":[{"name":"IF-2B","identifier":"PF01008"}],"pathways":[{"name":"Cysteine and methionine metabolism","kegg_map_id":"00270"},{"name":"Methionine metabolism and salvage","kegg_map_id":null}],"gene_sequence":"ATGTCGTTGGAAGCCATCGTCTTTGATAGATCGGAGCCAGAAAATGTTTCGGTAAAGGTACTTGATCAATTACTTTTACCATATACTACTAAATACGTTCCAATTCACACAATTGATGATGGGTACTCAGTCATCAAAAGTATGCAGGTGAGAGGTGCCCCGGCAATTGCAATTGTGGGTTCGTTATCTGTTTTGACTGAGGTACAATTAATAAAACACAACCCAACTTCTGATGTTGCTACGCTGTATTCTTTAGTTAACTGGGAATCTACAAAAACAGTGCTAAATAAGAGGCTAGATTTCCTTTTGAGTAGTAGACCCACAGCCGTTAATTTATCAAATTCTCTTGTAGAGATAAAGAACATACTGAAATCCTCAAGTGACCTAAAGGCTTTTGACGGTAGTTTATATAATTACGTCTGTGAATTGATAGATGAGGATTTGGCGAATAACATGAAAATGGGTGATAATGGAGCTAAGTATTTGATTGACGTGTTACAAAAGGACGGTTTCAAGGACGAATTTGCCGTTCTGACGATTTGTAATACTGGATCCTTAGCAACCTCTGGATATGGCACGGCTTTAGGTGTTATCCGTTCTTTGTGGAAGGATTCACTTGCTAAAACCGACAAGGCAGACTCGGGATTGGACAATGAAAAATGCCCGAGGATGGGCCATGTCTTCCCACTGGAAACTAGACCTTATAATCAAGGGTCAAGGCTAACAGCATACGAGCTAGTTTATGATAAGATTCCATCAACTTTAATTACTGATAGTTCCATCGCGTATAGAATTAGAACTAGTCCAATTCCAATCAAAGCAGCATTTGTTGGAGCTGATAGAATTGTTCGTAATGGGGATACAGCAAATAAAATTGGTACTTTACAACTTGCTGTAATTTGTAAGCAGTTCGGAATTAAGTTTTTTGTAGTAGCTCCCAAAACAACTATCGATAATGTAACCGAAACTGGCGATGACATTATTGTGGAAGAACGTAACCCTGAGGAATTCAAGGTTGTTACTGGTACAGTAATTAATCCTGAAAATGGTTCCTTGATATTGAATGAGTCAGGAGAGCCAATCACTGGAAAGGTCGGTATTGCCCCTCTTGAAATCAATGTCTGGAATCCAGCCTTCGACATTACTCCACATGAGCTTATTGACGGAATTATCACAGAAGAAGGTGTATTTACCAAAAATTCCAGTGGTGAATTTCAACTGGAAAGCCTTTTCTAG","protein_sequence":"MSLEAIVFDRSEPENVSVKVLDQLLLPYTTKYVPIHTIDDGYSVIKSMQVRGAPAIAIVGSLSVLTEVQLIKHNPTSDVATLYSLVNWESTKTVLNKRLDFLLSSRPTAVNLSNSLVEIKNILKSSSDLKAFDGSLYNYVCELIDEDLANNMKMGDNGAKYLIDVLQKDGFKDEFAVLTICNTGSLATSGYGTALGVIRSLWKDSLAKTDKADSGLDNEKCPRMGHVFPLETRPYNQGSRLTAYELVYDKIPSTLITDSSIAYRIRTSPIPIKAAFVGADRIVRNGDTANKIGTLQLAVICKQFGIKFFVVAPKTTIDNVTETGDDIIVEERNPEEFKVVTGTVINPENGSLILNESGEPITGKVGIAPLEINVWNPAFDITPHELIDGIITEEGVFTKNSSGEFQLESLF"},{"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":" 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"},{"category":"Process","description":" nucleobase, nucleoside and nucleotide 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"}]}