{"ymdb_id":"YMDB00695","created_at":"2011-05-29T18:44:12.000Z","updated_at":"2016-09-08T18:35:47.000Z","name":"L-2-amino-3-oxobutanoic acid","cas":null,"state":"Solid","melting_point":null,"description":"L-2-Amino-3-oxobutanoic acid is involved in glycine/serine metabolism and is a breakdown product from glycine. It spontaneously decomposes to aminoacetone. Delta-aminolevuliinate synthase is the enzyme that catalyzes the interconversion between glycine and L-2-amino-3-oxobutanoic acid. Glycine C-acetyltransferase is also capable of catalyzing this reaction.","experimental_water_solubility":null,"experimental_logp_hydrophobicity":null,"location":"cytoplasm","synthesis_reference":null,"chebi_id":"40673","hmdb_id":"HMDB06454","kegg_id":"C03508","pubchem_id":"5460100","cs_id":"389046","foodb_id":null,"wikipedia_link":null,"biocyc_id":"AMINO-OXOBUT","iupac":"(2S)-2-amino-3-oxobutanoic acid","traditional_iupac":"2-amino-3-ketobutyric acid","logp":"-3.0602758377471853","pka":"13.179862736987843","alogps_solubility":"2.06e+02 g/l","alogps_logp":"-2.63","alogps_logs":"0.25","acceptor_count":"4","donor_count":"2","rotatable_bond_count":"2","polar_surface_area":"80.39000000000001","refractivity":"25.5346","polarizability":"10.47020466024506","formal_charge":"0","physiological_charge":"0","pka_strongest_basic":"7.249120732565084","pka_strongest_acidic":"1.8723113404422236","bioavailability":"1","number_of_rings":"0","rule_of_five":"1","ghose_filter":"0","veber_rule":"0","mddr_like_rule":"0","synonyms":["(2S)-2-amino-3-oxobutanoate","(2S)-2-amino-3-oxobutanoic acid","(S)-2-Amino-3-oxobutanoate","(S)-2-Amino-3-oxobutanoic acid","2-AMINO-3-KETOBUTYRIC ACID","2-amino-3-oxobutanoate","2-amino-3-oxobutanoic acid","L-2-amino acetic acid","L-2-Amino-3-oxobutanoate","L-2-Amino-3-oxobutanoic acid","l-2-amino-acetoacetate"],"pathways":[{"name":"Glycine, serine and threonine metabolism","kegg_map_id":"00260"}],"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":12535615,"citation":"Fujisawa, H., Nagata, S., Misono, H. (2003). \"Characterization of short-chain dehydrogenase/reductase homologues of Escherichia coli (YdfG) and Saccharomyces cerevisiae (YMR226C).\" Biochim Biophys Acta 1645:89-94."}],"proteins":[{"created_at":"2011-05-24T21:32:47.000Z","updated_at":"2011-05-27T15:00:58.000Z","name":"Serine palmitoyltransferase 1","uniprot_id":"P25045","uniprot_name":"LCB1_YEAST","enzyme":true,"transporter":false,"gene_name":"LCB1","num_residues":558,"molecular_weight":"62206.60156","theoretical_pi":"6.1","general_function":"Involved in transferase activity, transferring nitrogenous groups","specific_function":"Component of serine palmitoyltransferase (SPT), which catalyzes the committed step in the synthesis of sphingolipids, the condensation of serine with palmitoyl CoA to form the long chain base 3-ketosphinganine","reactions":[{"id":1962,"direction":"\u003e","locations":"endoplasmic reticulum","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":2391,"direction":"\u003e","locations":"Cytoplasm. Endoplasmic reticulum. Membrane; Multi-pass membrane protein (Potential);Cytoplasm. Endoplasmic reticulum membrane; Multi-pass membrane protein","altext":"Palmitoyl-CoA + L-serine = CoA + 3-dehydro-D-sphinganine + CO(2).","export":false,"pw_reaction_id":null,"source":null},{"id":3861,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006382","source":"Smpdb"},{"id":3891,"direction":null,"locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006410","source":"Smpdb"},{"id":3892,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006826","source":"Smpdb"}],"signal_regions":"None","transmembrane_regions":"50-84;342-371;425-457","pdb_id":null,"cellular_location":"Cytoplasm. Endoplasmic reticulum membrane; Multi-pass membrane protein","genbank_gene_id":"AY693052","genbank_protein_id":"51013555","gene_card_id":"LCB1","chromosome_location":"chromosome 13","locus":"YMR296C","synonyms":["SPT 1","SPT1","Long chain base biosynthesis protein 1"],"enzyme_classes":["2.3.1.50"],"go_classes":[{"category":"Component","description":" Not Available"},{"category":"Function","description":" catalytic activity"},{"category":"Function","description":" transferase activity"},{"category":"Function","description":" binding"},{"category":"Function","description":" transferase activity, transferring nitrogenous groups"},{"category":"Function","description":" cofactor binding"},{"category":"Function","description":" pyridoxal phosphate binding"},{"category":"Process","description":" metabolic process"},{"category":"Process","description":" biosynthetic process"}],"pfams":[{"name":"Aminotran_1_2","identifier":"PF00155"}],"pathways":[{"name":"Sphingolipid metabolism","kegg_map_id":"00600"},{"name":"Biosynthesis of unsaturated fatty acids","kegg_map_id":"01040"},{"name":"Biosynthesis of unsaturated fatty acids (icosanoyl)","kegg_map_id":null},{"name":"Biosynthesis of unsaturated fatty acids (stearoyl)","kegg_map_id":null}],"gene_sequence":"ATGGCACACATCCCAGAGGTTTTACCCAAATCAATACCGATTCCGGCATTTATTGTTACCACCTCATCGTACCTATGGTACTACTTCAATCTGGTGTTGACTCAAATCCCGGGAGGCCAATTCATCGTTTCGTACATCAAGAAATCGCATCATGACGATCCATACAGGACCACGGTTGAGATAGGGCTTATTTTATACGGGATCATCTATTACTTGTCCAAGCCACAACAGAAAAAGAGTCTTCAAGCACAGAAGCCCAACCTATCGCCCCAGGAGATTGACGCGCTAATTGAGGACTGGGAGCCCGAGCCTCTAGTCGACCCTTCTGCCACCGATGAGCAATCGTGGAGGGTGGCCAAAACACCCGTCACCATGGAAATGCCCATTCAGAACCATATTACTATCACCAGAAACAACCTGCAGGAGAAGTATACCAATGTTTTCAATTTGGCCTCGAACAACTTTTTGCAATTGTCCGCTACGGAGCCCGTGAAAGAAGTGGTCAAGACCACTATCAAGAATTACGGTGTGGGCGCCTGTGGTCCCGCCGGGTTCTACGGTAACCAGGACGTTCATTACACGTTGGAATATGATTTAGCACAGTTCTTTGGCACCCAAGGTTCCGTTCTGTACGGGCAAGACTTTTGTGCCGCACCCTCTGTTCTGCCTGCTTTCACAAAGCGTGGTGATGTTATCGTGGCAGACGACCAGGTGTCATTACCAGTGCAAAATGCTCTGCAACTAAGCAGATCCACAGTCTACTACTTCAACCACAACGATATGAATTCGCTAGAATGTTTATTAAACGAGTTGACCGAACAGGAGAAACTTGAGAAACTGCCCGCCATTCCAAGAAAATTTATCGTCACTGAGGGTATTTTCCACAACTCGGGCGATTTAGCTCCGTTGCCTGAGTTGACTAAGCTGAAGAACAAGTACAAGTTCAGACTATTTGTTGACGAAACCTTCTCCATTGGTGTTCTTGGCGCTACGGGCCGTGGGTTGTCAGAGCACTTCAACATGGATCGCGCAACTGCCATTGACATTACCGTTGGGTCCATGGCCACCGCGTTGGGGTCCACCGGTGGTTTTGTCCTGGGTGACAGTGTTATGTGTTTGCACCAGCGTATTGGTTCCAATGCATATTGTTTTTCTGCCTGTTTGCCGGCTTACACCGTCACATCCGTCTCCAAAGTCTTGAAATTGATGGACTCCAACAACGACGCCGTCCAGACGCTGCAAAAACTATCCAAATCTTTGCATGATTCCTTTGCATCTGACGACTCCTTGCGTTCATACGTAATCGTCACGTCCTCTCCAGTGTCTGCTGTCCTACATCTGCAACTGACTCCCGCATATAGGTCTCGCAAGTTCGGATACACCTGCGAACAGCTATTCGAAACCATGTCAGCTTTGCAAAAGAAGTCCCAGACAAACAAATTCATTGAGCCATACGAAGAGGAGGAAAAATTTCTGCAGTCCATAGTAGATCATGCTCTTATTAACTACAACGTTCTCATCACAAGAAACACTATTGTTTTAAAACAGGAGACGCTACCAATTGTCCCTAGCTTGAAAATCTGCTGTAACGCCGCCATGTCCCCAGAGGAACTCAAAAATGCTTGCGAAAGTGTCAAGCAGTCCATCCTTGCCTGTTGCCAAGAATCTAATAAATAA","protein_sequence":"MAHIPEVLPKSIPIPAFIVTTSSYLWYYFNLVLTQIPGGQFIVSYIKKSHHDDPYRTTVEIGLILYGIIYYLSKPQQKKSLQAQKPNLSPQEIDALIEDWEPEPLVDPSATDEQSWRVAKTPVTMEMPIQNHITITRNNLQEKYTNVFNLASNNFLQLSATEPVKEVVKTTIKNYGVGACGPAGFYGNQDVHYTLEYDLAQFFGTQGSVLYGQDFCAAPSVLPAFTKRGDVIVADDQVSLPVQNALQLSRSTVYYFNHNDMNSLECLLNELTEQEKLEKLPAIPRKFIVTEGIFHNSGDLAPLPELTKLKNKYKFRLFVDETFSIGVLGATGRGLSEHFNMDRATAIDITVGSMATALGSTGGFVLGDSVMCLHQRIGSNAYCFSACLPAYTVTSVSKVLKLMDSNNDAVQTLQKLSKSLHDSFASDDSLRSYVIVTSSPVSAVLHLQLTPAYRSRKFGYTCEQLFETMSALQKKSQTNKFIEPYEEEEKFLQSIVDHALINYNVLITRNTIVLKQETLPIVPSLKICCNAAMSPEELKNACESVKQSILACCQESNK"},{"created_at":"2011-05-27T01:58:52.000Z","updated_at":"2011-05-29T14:01:21.000Z","name":"Uncharacterized oxidoreductase YMR226C","uniprot_id":"Q05016","uniprot_name":"YM71_YEAST","enzyme":true,"transporter":false,"gene_name":null,"num_residues":267,"molecular_weight":"29158.09961","theoretical_pi":"6.81","general_function":"Involved in oxidoreductase activity","specific_function":null,"reactions":[{"id":1691,"direction":"\u003c\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":1704,"direction":"\u003c\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":2652,"direction":"\u003e","locations":null,"altext":"L-serine + NADP+ = 2-ammoniomalonate semialdehyde + NADPH + H+","export":false,"pw_reaction_id":null,"source":null}],"signal_regions":"None","transmembrane_regions":"None","pdb_id":null,"cellular_location":null,"genbank_gene_id":"Z49939","genbank_protein_id":"887607","gene_card_id":null,"chromosome_location":null,"locus":"YMR226C","synonyms":[],"enzyme_classes":["1.-.-.-","1.1.1.276"],"go_classes":[{"category":"Component","description":" Not Available"},{"category":"Function","description":" catalytic activity"},{"category":"Function","description":" binding"},{"category":"Function","description":" oxidoreductase activity"},{"category":"Process","description":" metabolic process"},{"category":"Process","description":" oxidation reduction"}],"pfams":[{"name":"adh_short","identifier":"PF00106"}],"pathways":[],"gene_sequence":"ATGTCCCAAGGTAGAAAAGCTGCAGAAAGATTGGCTAAGAAGACTGTCCTCATTACAGGTGCATCTGCTGGTATTGGTAAGGCGACCGCATTAGAGTACTTGGAGGCATCCAATGGTGATATGAAACTGATCTTGGCTGCTAGAAGATTAGAAAAGCTCGAGGAATTGAAGAAGACCATTGATCAAGAGTTTCCAAACGCAAAAGTTCATGTGGCCCAGCTGGATATCACTCAAGCAGAAAAAATCAAGCCCTTCATTGAAAACTTGCCACAAGAGTTCAAGGATATTGACATTCTGGTGAACAATGCCGGAAAGGCTCTTGGCAGTGACCGTGTGGGCCAGATCGCAACGGAGGATATCCAGGACGTGTTTGACACCAACGTCACGGCTTTAATCAATATCACACAAGCTGTACTGCCCATATTCCAAGCCAAGAATTCAGGAGATATTGTAAATTTGGGTTCAATCGCTGGCAGAGACGCATACCCAACAGGTTCTATCTATTGTGCCTCTAAGTTTGCCGTGGGGGCGTTCACTGATAGTTTGAGAAAGGAGCTCATCAACACTAAAATTAGAGTCATTCTAATTGCACCAGGGCTAGTCGAGACTGAATTTTCACTAGTTAGATACAGAGGTAACGAGGAACAAGCCAAGAATGTTTACAAGGATACTACCCCATTGATGGCTGATGACGTGGCTGATCTGATCGTCTATGCAACTTCCAGAAAACAAAATACTGTAATTGCAGACACTTTAATCTTTCCAACAAACCAAGCGTCACCTCATCATATCTTCCGTGGATAA","protein_sequence":"MSQGRKAAERLAKKTVLITGASAGIGKATALEYLEASNGDMKLILAARRLEKLEELKKTIDQEFPNAKVHVAQLDITQAEKIKPFIENLPQEFKDIDILVNNAGKALGSDRVGQIATEDIQDVFDTNVTALINITQAVLPIFQAKNSGDIVNLGSIAGRDAYPTGSIYCASKFAVGAFTDSLRKELINTKIRVILIAPGLVETEFSLVRYRGNEEQAKNVYKDTTPLMADDVADLIVYATSRKQNTVIADTLIFPTNQASPHHIFRG"},{"created_at":"2011-05-27T02:09:59.000Z","updated_at":"2011-07-22T17:54:08.000Z","name":"NADP-dependent alcohol dehydrogenase 6","uniprot_id":"Q04894","uniprot_name":"ADH6_YEAST","enzyme":true,"transporter":false,"gene_name":"ADH6","num_residues":360,"molecular_weight":"39617.30078","theoretical_pi":"6.73","general_function":"Involved in zinc ion binding","specific_function":"NADP-dependent alcohol dehydrogenase with a broad substrate specificity","reactions":[{"id":1295,"direction":"\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":1297,"direction":"\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":1304,"direction":"\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":1306,"direction":"\u003e","locations":"cytoplasm","altext":null,"export":true,"pw_reaction_id":null,"source":null},{"id":2660,"direction":"\u003e","locations":"","altext":"An alcohol + NADP(+) = an aldehyde + NADPH.","export":false,"pw_reaction_id":null,"source":null},{"id":3860,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006381","source":"Smpdb"},{"id":3900,"direction":"\u003c\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006417","source":"Smpdb"},{"id":3901,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006521","source":"Smpdb"},{"id":3902,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006526","source":"Smpdb"},{"id":3903,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006538","source":"Smpdb"},{"id":3904,"direction":"\u003c\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006558","source":"Smpdb"},{"id":3905,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006972","source":"Smpdb"},{"id":3906,"direction":"\u003c\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006976","source":"Smpdb"},{"id":3907,"direction":"\u003e","locations":null,"altext":null,"export":true,"pw_reaction_id":"PW_R006980","source":"Smpdb"}],"signal_regions":"None","transmembrane_regions":"None","pdb_id":"1Q1N","cellular_location":null,"genbank_gene_id":"Z54141","genbank_protein_id":"984691","gene_card_id":"ADH6","chromosome_location":"chromosome 13","locus":"YMR318C","synonyms":["NADP-dependent alcohol dehydrogenase VI","ScADHVI"],"enzyme_classes":["1.1.1.2"],"go_classes":[{"category":"Component","description":" Not Available"},{"category":"Function","description":" zinc ion binding"},{"category":"Function","description":" catalytic activity"},{"category":"Function","description":" binding"},{"category":"Function","description":" ion binding"},{"category":"Function","description":" cation binding"},{"category":"Function","description":" metal ion binding"},{"category":"Function","description":" transition metal ion binding"},{"category":"Function","description":" oxidoreductase activity"},{"category":"Process","description":" metabolic process"},{"category":"Process","description":" oxidation reduction"}],"pfams":[{"name":"ADH_N","identifier":"PF08240"},{"name":"ADH_zinc_N","identifier":"PF00107"}],"pathways":[{"name":"Glycolysis / Gluconeogenesis","kegg_map_id":"00010"},{"name":"Glycerolipid metabolism","kegg_map_id":"00561"},{"name":"Ethanol fermentation","kegg_map_id":null},{"name":"Glycerol metabolism","kegg_map_id":null},{"name":"Isoleucine degradation","kegg_map_id":null},{"name":"Leucine Degradation","kegg_map_id":null},{"name":"Phenylalanine metabolism","kegg_map_id":"00360"},{"name":"Pyruvate metabolism","kegg_map_id":"00620"},{"name":"Tryptophan metabolism","kegg_map_id":"00380"},{"name":"Tyrosine metabolism","kegg_map_id":"00350"},{"name":"Valine Degradation","kegg_map_id":null}],"gene_sequence":"ATGTCTTATCCTGAGAAATTTGAAGGTATCGCTATTCAATCACACGAAGATTGGAAAAACCCAAAGAAGACAAAGTATGACCCAAAACCATTTTACGATCATGACATTGACATTAAGATCGAAGCATGTGGTGTCTGCGGTAGTGATATTCATTGTGCAGCTGGTCATTGGGGCAATATGAAGATGCCGCTAGTCGTTGGTCATGAAATCGTTGGTAAAGTTGTCAAGCTAGGGCCCAAGTCAAACAGTGGGTTGAAAGTCGGTCAACGTGTTGGTGTAGGTGCTCAAGTCTTTTCATGCTTGGAATGTGACCGTTGTAAGAATGATAATGAACCATACTGCACCAAGTTTGTTACCACATACAGTCAGCCTTATGAAGACGGCTATGTGTCGCAGGGTGGCTATGCAAACTACGTCAGAGTTCATGAACATTTTGTGGTGCCTATCCCAGAGAATATTCCATCACATTTGGCTGCTCCACTATTATGTGGTGGTTTGACTGTGTACTCTCCATTGGTTCGTAACGGTTGCGGTCCAGGTAAAAAAGTTGGTATAGTTGGTCTTGGTGGTATCGGCAGTATGGGTACATTGATTTCCAAAGCCATGGGGGCAGAGACGTATGTTATTTCTCGTTCTTCGAGAAAAAGAGAAGATGCAATGAAGATGGGCGCCGATCACTACATTGCTACATTAGAAGAAGGTGATTGGGGTGAAAAGTACTTTGACACCTTCGACCTGATTGTAGTCTGTGCTTCCTCCCTTACCGACATTGACTTCAACATTATGCCAAAGGCTATGAAGGTTGGTGGTAGAATTGTCTCAATCTCTATACCAGAACAACACGAAATGTTATCGCTAAAGCCATATGGCTTAAAGGCTGTCTCCATTTCTTACAGTGCTTTAGGTTCCATCAAAGAATTGAACCAACTCTTGAAATTAGTCTCTGAAAAAGATATCAAAATTTGGGTGGAAACATTACCTGTTGGTGAAGCCGGCGTCCATGAAGCCTTCGAAAGGATGGAAAAGGGTGACGTTAGATATAGATTTACCTTAGTCGGCTACGACAAAGAATTTTCAGACTAG","protein_sequence":"MSYPEKFEGIAIQSHEDWKNPKKTKYDPKPFYDHDIDIKIEACGVCGSDIHCAAGHWGNMKMPLVVGHEIVGKVVKLGPKSNSGLKVGQRVGVGAQVFSCLECDRCKNDNEPYCTKFVTTYSQPYEDGYVSQGGYANYVRVHEHFVVPIPENIPSHLAAPLLCGGLTVYSPLVRNGCGPGKKVGIVGLGGIGSMGTLISKAMGAETYVISRSSRKREDAMKMGADHYIATLEEGDWGEKYFDTFDLIVVCASSLTDIDFNIMPKAMKVGGRIVSISIPEQHEMLSLKPYGLKAVSISYSALGSIKELNQLLKLVSEKDIKIWVETLPVGEAGVHEAFERMEKGDVRYRFTLVGYDKEFSD"}]}