{"ymdb_id":"YMDB00346","created_at":"2011-05-29T18:08:10.000Z","updated_at":"2016-09-08T18:35:22.000Z","name":"Allysine","cas":"1962-83-0","state":"Solid","melting_point":"","description":"Allysine is an intermediate in lysine biosynthesis pathway. S. cerevisiae synthesizes the essential amino acid L-lysine via the L-alpha-aminoadipate pathway instead of the diaminopimelate pathway. [Biocyc LYSINE-AMINOAD-PWY]","experimental_water_solubility":"","experimental_logp_hydrophobicity":"","location":null,"synthesis_reference":null,"chebi_id":"17027","hmdb_id":"HMDB01263","kegg_id":"C01475","pubchem_id":"207","cs_id":"202","foodb_id":null,"wikipedia_link":"Allysine","biocyc_id":"ALLYSINE","iupac":"2-amino-6-oxohexanoic acid","traditional_iupac":"allysine","logp":"-2.9081307015216913","pka":"15.358758006099542","alogps_solubility":"4.94e+01 g/l","alogps_logp":"-2.20","alogps_logs":"-0.47","acceptor_count":"4","donor_count":"2","rotatable_bond_count":"5","polar_surface_area":"80.39","refractivity":"34.963300000000004","polarizability":"14.58705086857519","formal_charge":"0","physiological_charge":"0","pka_strongest_basic":"9.326169290087433","pka_strongest_acidic":"2.249930329891595","bioavailability":"1","number_of_rings":"0","rule_of_five":"1","ghose_filter":"0","veber_rule":"0","mddr_like_rule":"0","synonyms":["(2S)-2-amino-6-oxohexanoate","(2S)-2-amino-6-oxohexanoic acid","2-Amino-5-formylvalerate","2-Amino-5-formylvaleric acid","2-amino-hexanedioate","2-amino-hexanedioic acid","2-amino-hexanedioic acid semialdhyde","2-aminoadipate 6-semialdehyde","2-aminoadipate semialdehyde","2-aminoadipate-6-semialdehyde","5-formyl-Norvaline","6-oxo-L-norleucine","6-oxo-Norleucine","Allysine","alpha-Aminoadipic acid delta-semialdehyde","alpha-Aminoadipic delta-semialdehyde","alpha-Aminoadipic semialdehyde","L-2-Aminoadipate 6-semialdehyde","L-6-oxonorleucine","L-Allysine"],"pathways":[{"name":"lysine metabolism","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":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."}],"proteins":[{"created_at":"2011-05-24T20:18:23.000Z","updated_at":"2011-05-27T14:56:00.000Z","name":"Saccharopine dehydrogenase [NADP+, L-glutamate-forming]","uniprot_id":"P38999","uniprot_name":"LYS9_YEAST","enzyme":true,"transporter":false,"gene_name":"LYS9","num_residues":446,"molecular_weight":"48917.30078","theoretical_pi":"4.87","general_function":"Involved in binding","specific_function":"N(6)-(L-1,3-dicarboxypropyl)-L-lysine + NADP(+) + H(2)O = L-glutamate + L-2-aminoadipate 6-semialdehyde + NADPH","reactions":[{"id":1960,"direction":"\u003c\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":2310,"direction":"\u003e","locations":null,"altext":"N(6)-(L-1,3-dicarboxypropyl)-L-lysine + NADP(+) + H(2)O = L-glutamate + L-2-aminoadipate 6-semialdehyde + NADPH.","export":false,"pw_reaction_id":null,"source":null},{"id":4178,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006477","source":"Smpdb"}],"signal_regions":"None","transmembrane_regions":"None","pdb_id":null,"cellular_location":null,"genbank_gene_id":"X77363","genbank_protein_id":"453186","gene_card_id":"LYS9","chromosome_location":"chromosome 14","locus":"YNR050C","synonyms":["Saccharopine reductase"],"enzyme_classes":["1.5.1.10"],"go_classes":[],"pfams":[{"name":"Saccharop_dh","identifier":"PF03435"}],"pathways":[{"name":"Lysine biosynthesis","kegg_map_id":"00300"},{"name":"Lysine degradation","kegg_map_id":"00310"},{"name":"lysine metabolism","kegg_map_id":null}],"gene_sequence":"ATGGGAAAGAACGTTTTGTTGCTAGGATCTGGTTTTGTTGCACAACCTGTTATCGACACATTGGCTGCTAATGATGACATCAATGTCACTGTCGCATGTAGAACATTAGCCAATGCGCAAGCATTGGCCAAGCCCTCTGGATCCAAGGCTATTTCATTGGATGTTACCGATGACAGTGCCTTAGACAAAGTTCTGGCTGATAACGATGTTGTCATCTCTTTGATTCCATACACCTTCCATCCAAATGTGGTAAAGAGCGCCATCAGAACAAAGACCGATGTCGTCACTTCCTCTTACATCTCACCTGCCTTAAGAGAATTGGAACCAGAAATCGTAAAGGCAGGTATTACAGTTATGAACGAAATTGGGTTGGATCCAGGTATCGACCACTTGTATGCGGTCAAGACTATTGATGAAGTTCACAGAGCTGGTGGTAAGCTAAAGTCATTCTTGTCATACTGTGGTGGTTTACCAGCTCCTGAAGACTCTGATAATCCATTAGGATACAAATTTTCATGGTCCTCCAGAGGTGTGCTACTGGCTTTAAGAAACTCTGCTAAATACTGGAAAGACGGAAAGATTGAAACTGTTTCTTCCGAAGACTTAATGGCCACTGCTAAGCCTTACTTCATCTACCCAGGTTATGCATTCGTTTGCTACCCAAATAGAGACTCTACCCTTTTCAAGGATCTTTATCATATTCCAGAAGCCGAAACGGTCATTAGAGGTACTTTGAGATATCAAGGTTTCCCAGAATTTGTTAAGGCTTTAGTTGACATGGGTATGTTGAAGGATGATGCTAACGAAATCTTCAGCAAGCCAATTGCCTGGAACGAAGCACTAAAACAATATTTAGGTGCCAAGTCTACTTCTAAAGAAGATTTGATTGCTTCCATTGACTCAAAGGCTACTTGGAAAGATGATGAAGATAGAGAAAGAATCCTTTCCGGGTTTGCTTGGTTAGGCTTGTTCTCTGACGCAAAGATCACACCAAGAGGTAATGCTTTAGACACTCTATGTGCACGTTTAGAAGAACTAATGCAATATGAAGACAATGAAAGAGATATGGTTGTACTACAACACAAATTCGGTATTGAATGGGCTGATGGAACTACCGAAACAAGAACATCCACTTTAGTTGACTATGGTAAGGTTGGTGGTTACAGTTCTATGGCCGCTACTGTTGGTTATCCAGTTGCCATTGCAACGAAATTCGTCTTAGATGGTACAATCAAGGGACCAGGCTTACTAGCGCCATACTCACCAGAGATTAATGATCCAATCATGAAAGAACTAAAGGACAAGTACGGCATCTATCTAAAGGAAAAGACAGTGGCTTAA","protein_sequence":"MGKNVLLLGSGFVAQPVIDTLAANDDINVTVACRTLANAQALAKPSGSKAISLDVTDDSALDKVLADNDVVISLIPYTFHPNVVKSAIRTKTDVVTSSYISPALRELEPEIVKAGITVMNEIGLDPGIDHLYAVKTIDEVHRAGGKLKSFLSYCGGLPAPEDSDNPLGYKFSWSSRGVLLALRNSAKYWKDGKIETVSSEDLMATAKPYFIYPGYAFVCYPNRDSTLFKDLYHIPEAETVIRGTLRYQGFPEFVKALVDMGMLKDDANEIFSKPIAWNEALKQYLGAKSTSKEDLIASIDSKATWKDDEDRERILSGFAWLGLFSDAKITPRGNALDTLCARLEELMQYEDNERDMVVLQHKFGIEWADGTTETRTSTLVDYGKVGGYSSMAATVGYPVAIATKFVLDGTIKGPGLLAPYSPEINDPIMKELKDKYGIYLKEKTVA"},{"created_at":"2011-05-26T19:17:15.000Z","updated_at":"2011-05-27T15:01:06.000Z","name":"L-aminoadipate-semialdehyde dehydrogenase","uniprot_id":"P07702","uniprot_name":"LYS2_YEAST","enzyme":true,"transporter":false,"gene_name":"LYS2","num_residues":1392,"molecular_weight":"155344.0","theoretical_pi":"5.75","general_function":"Involved in ligase activity","specific_function":"Catalyzes the activation of alpha-aminoadipate by ATP- dependent adenylation and the reduction of activated alpha- aminoadipate by NADPH","reactions":[{"id":2563,"direction":"\u003e","locations":null,"altext":"L-2-aminoadipate 6-semialdehyde + NAD(P)(+) + H(2)O = L-2-aminoadipate + NAD(P)H.","export":false,"pw_reaction_id":null,"source":null},{"id":4176,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006475","source":"Smpdb"},{"id":4177,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006476","source":"Smpdb"}],"signal_regions":"None","transmembrane_regions":"None","pdb_id":null,"cellular_location":null,"genbank_gene_id":"M36287","genbank_protein_id":"171867","gene_card_id":"LYS2","chromosome_location":"chromosome 2","locus":"YBR115C","synonyms":["Alpha-aminoadipate reductase","Alpha-AR"],"enzyme_classes":["1.2.1.31"],"go_classes":[{"category":"Component","description":" Not Available"},{"category":"Function","description":" carboxylic acid binding"},{"category":"Function","description":" amino acid binding"},{"category":"Function","description":" oxidoreductase activity"},{"category":"Function","description":" transporter activity"},{"category":"Function","description":" cofactor binding"},{"category":"Function","description":" oxidoreductase activity, acting on the aldehyde or oxo group of donors"},{"category":"Function","description":" catalytic activity"},{"category":"Function","description":" oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor"},{"category":"Function","description":" phosphopantetheine binding"},{"category":"Function","description":" ligase activity"},{"category":"Function","description":" substrate-specific transporter activity"},{"category":"Function","description":" acyl carrier activity"},{"category":"Function","description":" L-aminoadipate-semialdehyde dehydrogenase activity"},{"category":"Function","description":" binding"},{"category":"Process","description":" oxidation reduction"},{"category":"Process","description":" aspartate family amino acid metabolic process"},{"category":"Process","description":" metabolic process"},{"category":"Process","description":" cellular metabolic process"},{"category":"Process","description":" cellular amino acid and derivative metabolic process"},{"category":"Process","description":" lysine metabolic process"},{"category":"Process","description":" cellular amino acid metabolic process"},{"category":"Process","description":" lysine biosynthetic process"}],"pfams":[{"name":"AMP-binding","identifier":"PF00501"},{"name":"PP-binding","identifier":"PF00550"},{"name":"NAD_binding_4","identifier":"PF07993"}],"pathways":[{"name":"Lysine biosynthesis","kegg_map_id":"00300"},{"name":"Lysine degradation","kegg_map_id":"00310"},{"name":"lysine metabolism","kegg_map_id":null}],"gene_sequence":"ATGACTAACGAAAAGGTCTGGATAGAGAAGTTGGATAATCCAACTCTTTCAGTGTTACCACATGACTTTTTACGCCCACAACAAGAACCTTATACGAAACAAGCTACATATTCGTTACAGCTACCTCAGCTCGATGTGCCTCATGATAGTTTTTCTAACAAATACGCTGTCGCTTTGAGTGTATGGGCTGCATTGATATATAGAGTAACCGGTGACGATGATATTGTTCTTTATATTGCGAATAACAAAATCTTAAGATTCAATATTCAACCAACGTGGTCATTTAATGAGCTGTATTCTACAATTAACAATGAGTTGAACAAGCTCAATTCTATTGAGGCCAATTTTTCCTTTGACGAGCTAGCTGAAAAAATTCAAAGTTGCCAAGATCTGGAAAGGACCCCTCAGTTGTTCCGTTTGGCCTTTTTGGAAAACCAAGATTTCAAATTAGACGAGTTCAAGCATCATTTAGTGGACTTTGCTTTGAATTTGGATACCAGTAATAATGCGCATGTTTTGAACTTAATTTATAACAGCTTACTGTATTCGAATGAAAGAGTAACCATTGTTGCGGACCAATTTACTCAATATTTGACTGCTGCGCTAAGCGATCCATCCAATTGCATAACTAAAATCTCTCTGATCACCGCATCATCCAAGGATAGTTTACCTGATCCAACTAAGAACTTGGGCTGGTGCGATTTCGTGGGGTGTATTCACGACATTTTCCAGGACAATGCTGAAGCCTTCCCAGAGAGAACCTGTGTTGTGGAGACTCCAACACTAAATTCCGACAAGTCCCGTTCTTTCACTTATCGCGACATCAACCGCACTTCTAACATAGTTGCCCATTATTTGATTAAAACAGGTATCAAAAGAGGTGATGTAGTGATGATCTATTCTTCTAGGGGTGTGGATTTGATGGTATGTGTGATGGGTGTCTTGAAAGCCGGCGCAACCTTTTCAGTTATCGACCCTGCATATCCCCCAGCCAGACAAACCATTTACTTAGGTGTTGCTAAACCACGTGGGTTGATTGTTATTAGAGCTGCTGGACAATTGGATCAACTAGTAGAAGATTACATCAATGATGAATTGGAGATTGTTTCAAGAATCAATTCCATCGCTATTCAAGAAAATGGTACCATTGAAGGTGGCAAATTGGACAATGGCGAGGATGTTTTGGCTCCATATGATCACTACAAAGACACCAGAACAGGTGTTGTAGTTGGACCAGATTCCAACCCAACCCTATCTTTCACATCTGGTTCCGAAGGTATTCCTAAGGGTGTTCTTGGTAGACATTTTTCCTTGGCTTATTATTTCAATTGGATGTCCAAAAGGTTCAACTTAACAGAAAATGATAAATTCACAATGCTGAGCGGTATTGCACATGATCCAATTCAAAGAGATATGTTTACACCATTATTTTTAGGTGCCCAATTGTATGTCCCTACTCAAGATGATATTGGTACACCGGGCCGTTTAGCGGAATGGATGAGTAAGTATGGTTGCACAGTTACCCATTTAACACCTGCCATGGGTCAATTACTTACTGCCCAAGCTACTACACCATTCCCTAAGTTACATCATGCGTTCTTTGTGGGTGACATTTTAACAAAACGTGATTGTCTGAGGTTACAAACCTTGGCAGAAAATTGCCGTATTGTTAATATGTACGGTACCACTGAAACACAGCGTGCAGTTTCTTATTTCGAAGTTAAATCAAAAAATGACGATCCAAACTTTTTGAAAAAATTGAAAGATGTCATGCCTGCTGGTAAAGGTATGTTGAACGTTCAGCTACTAGTTGTTAACAGGAACGATCGTACTCAAATATGTGGTATTGGCGAAATAGGTGAGATTTATGTTCGTGCAGGTGGTTTGGCCGAAGGTTATAGAGGATTACCAGAATTGAATAAAGAAAAATTTGTGAACAACTGGTTTGTTGAAAAAGATCACTGGAATTATTTGGATAAGGATAATGGTGAACCTTGGAGACAATTCTGGTTAGGTCCAAGAGATAGATTGTACAGAACGGGTGATTTAGGTCGTTATCTACCAAACGGTGACTGTGAATGTTGCGGTAGGGCTGATGATCAAGTTAAAATTCGTGGGTTCAGAATCGAATTAGGAGAAATAGATACGCACATTTCCCAACATCCATTGGTAAGAGAAAACATTACTTTAGTTCGCAAAAATGCCGACAATGAGCCAACATTGATCACATTTATGGTCCCAAGATTTGACAAGCCAGATGACTTGTCTAAGTTCCAAAGTGATGTTCCAAAGGAGGTTGAAACTGACCCTATAGTTAAGGGCTTAATCGGTTACCATCTTTTATCCAAGGACATCAGGACTTTCTTAAAGAAAAGATTGGCTAGCTATGCTATGCCTTCCTTGATTGTGGTTATGGATAAACTACCATTGAATCCAAATGGTAAAGTTGATAAGCCTAAACTTCAATTCCCAACTCCCAAGCAATTAAATTTGGTAGCTGAAAATACAGTTTCTGAAACTGACGACTCTCAGTTTACCAATGTTGAGCGCGAGGTTAGAGACTTATGGTTAAGTATATTACCTACCAAGCCAGCATCTGTATCACCAGATGATTCGTTTTTCGATTTAGGTGGTCATTCTATCTTGGCTACCAAAATGATTTTTACCTTAAAGAAAAAGCTGCAAGTTGATTTACCATTGGGCACAATTTTCAAGTATCCAACGATAAAGGCCTTTGCCGCGGAAATTGACAGAATTAAATCATCGGGTGGATCATCTCAAGGTGAGGTCGTCGAAAATGTCACTGCAAATTATGCGGAAGACGCCAAGAAATTGGTTGAGACGCTACCAAGTTCGTACCCCTCTCGAGAATATTTTGTTGAACCTAATAGTGCCGAAGGAAAAACAACAATTAATGTGTTTGTTACCGGTGTCACAGGATTTCTGGGCTCCTACATCCTTGCAGATTTGTTAGGACGTTCTCCAAAGAACTACAGTTTCAAAGTGTTTGCCCACGTCAGGGCCAAGGATGAAGAAGCTGCATTTGCAAGATTACAAAAGGCAGGTATCACCTATGGTACTTGGAACGAAAAATTTGCCTCAAATATTAAAGTTGTATTAGGCGATTTATCTAAAAGCCAATTTGGTCTTTCAGATGAGAAGTGGATGGATTTGGCAAACACAGTTGATATAATTATCCATAATGGTGCGTTAGTTCACTGGGTTTATCCATATGCCAAATTGAGGGATCCAAATGTTATTTCAACTATCAATGTTATGAGCTTAGCCGCCGTCGGCAAGCCAAAGTTCTTTGACTTTGTTTCCTCCACTTCTACTCTTGACACTGAATACTACTTTAATTTGTCAGATAAACTTGTTAGCGAAGGGAAGCCAGGCATTTTAGAATCAGACGATTTAATGAACTCTGCAAGCGGGCTCACTGGTGGATATGGTCAGTCCAAATGGGCTGCTGAGTACATCATTAGACGTGCAGGTGAAAGGGGCCTACGTGGGTGTATTGTCAGACCAGGTTACGTAACAGGTGCCTCTGCCAATGGTTCTTCAAACACAGATGATTTCTTATTGAGATTTTTGAAAGGTTCAGTCCAATTAGGTAAGATTCCAGATATCGAAAATTCCGTGAATATGGTTCCAGTAGATCATGTTGCTCGTGTTGTTGTTGCTACGTCTTTGAATCCTCCCAAAGAAAATGAATTGGCCGTTGCTCAAGTAACGGGTCACCCAAGAATATTATTCAAAGACTACTTGTATACTTTACACGATTATGGTTACGATGTCGAAATCGAAAGCTATTCTAAATGGAAGAAATCATTGGAGGCGTCTGTTATTGACAGGAATGAAGAAAATGCGTTGTATCCTTTGCTACACATGGTCTTAGACAACTTACCTGAAAGTACCAAAGCTCCGGAACTAGACGATAGGAACGCCGTGGCATCTTTAAAGAAAGACACCGCATGGACAGGTGTTGATTGGTCTAATGGAATAGGTGTTACTCCAGAAGAGGTTGGTATATATATTGCATTTTTAAACAAGGTTGGATTTTTACCTCCACCAACTCATAATGACAAACTTCCACTGCCAAGTATAGAACTAACTCAAGCGCAAATAAGTCTAGTTGCTTCAGGTGCTGGTGCTCGTGGAAGCTCCGCAGCAGCTTAA","protein_sequence":"MTNEKVWIEKLDNPTLSVLPHDFLRPQQEPYTKQATYSLQLPQLDVPHDSFSNKYAVALSVWAALIYRVTGDDDIVLYIANNKILRFNIQPTWSFNELYSTINNELNKLNSIEANFSFDELAEKIQSCQDLERTPQLFRLAFLENQDFKLDEFKHHLVDFALNLDTSNNAHVLNLIYNSLLYSNERVTIVADQFTQYLTAALSDPSNCITKISLITASSKDSLPDPTKNLGWCDFVGCIHDIFQDNAEAFPERTCVVETPTLNSDKSRSFTYRDINRTSNIVAHYLIKTGIKRGDVVMIYSSRGVDLMVCVMGVLKAGATFSVIDPAYPPARQTIYLGVAKPRGLIVIRAAGQLDQLVEDYINDELEIVSRINSIAIQENGTIEGGKLDNGEDVLAPYDHYKDTRTGVVVGPDSNPTLSFTSGSEGIPKGVLGRHFSLAYYFNWMSKRFNLTENDKFTMLSGIAHDPIQRDMFTPLFLGAQLYVPTQDDIGTPGRLAEWMSKYGCTVTHLTPAMGQLLTAQATTPFPKLHHAFFVGDILTKRDCLRLQTLAENCRIVNMYGTTETQRAVSYFEVKSKNDDPNFLKKLKDVMPAGKGMLNVQLLVVNRNDRTQICGIGEIGEIYVRAGGLAEGYRGLPELNKEKFVNNWFVEKDHWNYLDKDNGEPWRQFWLGPRDRLYRTGDLGRYLPNGDCECCGRADDQVKIRGFRIELGEIDTHISQHPLVRENITLVRKNADNEPTLITFMVPRFDKPDDLSKFQSDVPKEVETDPIVKGLIGYHLLSKDIRTFLKKRLASYAMPSLIVVMDKLPLNPNGKVDKPKLQFPTPKQLNLVAENTVSETDDSQFTNVEREVRDLWLSILPTKPASVSPDDSFFDLGGHSILATKMIFTLKKKLQVDLPLGTIFKYPTIKAFAAEIDRIKSSGGSSQGEVVENVTANYAEDAKKLVETLPSSYPSREYFVEPNSAEGKTTINVFVTGVTGFLGSYILADLLGRSPKNYSFKVFAHVRAKDEEAAFARLQKAGITYGTWNEKFASNIKVVLGDLSKSQFGLSDEKWMDLANTVDIIIHNGALVHWVYPYAKLRDPNVISTINVMSLAAVGKPKFFDFVSSTSTLDTEYYFNLSDKLVSEGKPGILESDDLMNSASGLTGGYGQSKWAAEYIIRRAGERGLRGCIVRPGYVTGASANGSSNTDDFLLRFLKGSVQLGKIPDIENSVNMVPVDHVARVVVATSLNPPKENELAVAQVTGHPRILFKDYLYTLHDYGYDVEIESYSKWKKSLEASVIDRNEENALYPLLHMVLDNLPESTKAPELDDRNAVASLKKDTAWTGVDWSNGIGVTPEEVGIYIAFLNKVGFLPPPTHNDKLPLPSIELTQAQISLVASGAGARGSSAAA"}]}