{ "bcoid": "GLY_000811", "title": "Yeast Protein Enzyme Annotation (UniProtKB)", "description": "The Yeast Protein Enzyme Annotation (UniProtKB) dataset contains yeast [taxid:559292] enzyme annotations ...", "filename": "yeast_protein_enzyme_annotation_uniprotkb.csv", "filetype": "csv", "categories": { "species": [ "Saccharomyces cerevisiae S288C" ], "molecule": [ "Protein" ], "tag": [ "enzyme annotation" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "P48561-1...", "2.7.7.19..." ], [ "P48561-1...", "2.7.7.19..." ] ], "headers": [ "uniprotkb_ca...", "enzyme_ec..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "enzyme_ec" }, { "type": "string", "label": "enzyme_activity" } ], [ "P48561-1", "2.7.7.19", "ATP + RNA(n) = diphosphate + RNA(n)-3'-adenine ribonucleotide." ], [ "P48561-1", "2.7.7.19", "" ], [ "P48562-1", "2.7.11.1", "ATP + L-seryl-[protein] = ADP + H(+) + O-phospho-L-seryl-[protein]." ], [ "P48562-1", "2.7.11.1", "" ], [ "P39976-1", "1.1.2.4", "(R)-lactate + 2 Fe(III)-[cytochrome c] = 2 Fe(II)-[cytochrome c] + 2 H(+) + pyruvate." ], [ "P39976-1", "1.1.99.40", "(R)-2-hydroxyglutarate + pyruvate = (R)-lactate + 2-oxoglutarate." ], [ "P39976-1", "1.1.99.40", "" ], [ "P48567-1", "5.4.99.25", "uridine(55) in tRNA = pseudouridine(55) in tRNA." ], [ "P48567-1", "5.4.99.25", "" ], [ "P10659-1", "2.5.1.6", "ATP + H2O + L-methionine = diphosphate + phosphate + S-adenosyl-L-methionine." ], [ "P10659-1", "2.5.1.6", "" ], [ "P39979-1", "2.3.1.48", "acetyl-CoA + L-lysyl-[histone] = CoA + H(+) + N(6)-acetyl-L-lysyl-[histone]." ], [ "P39979-1", "2.3.1.36", "a D-alpha-amino acid + acetyl-CoA = an N-acetyl-D-amino acid + CoA + H(+)." ], [ "P39979-1", "2.3.1.36", "" ], [ "P39979-1", "2.3.1.48", "" ], [ "P40559-1", "3.1.3.36", "a 1,2-diacyl-sn-glycero-3-phospho-(1D-myo-inositol-4,5-bisphosphate) + H2O = a 1,2-diacyl-sn-glycero-3-phospho-(1D-myo-inositol 4-phosphate) + phosphate." ], [ "P40559-1", "3.1.3.36", "" ], [ "P25379-1", "4.3.1.17", "L-serine = NH4(+) + pyruvate." ], [ "P25379-1", "4.3.1.19", "L-threonine = 2-oxobutanoate + NH4(+)." ], [ "Q07560-1", "2.7.8.41", "1,2-diacyl-sn-glycero-3-phospho-(1'-sn-glycerol) + a CDP-1,2-diacyl-sn-glycerol = a cardiolipin + CMP + H(+)." ], [ "Q07560-1", "2.7.8.41", "" ], [ "P25375-1", "3.4.24.37", "Cleavage of Pro-|-Phe and Ala-|-Ala bonds." ], [ "P25375-1", "3.4.24.37", "" ], [ "P25374-1", "2.8.1.7", "[sulfur carrier]-H + L-cysteine = [sulfur carrier]-SH + L-alanine." ], [ "P25374-1", "2.8.1.7", "" ], [ "P25377-1", "1.1.1.2", "a secondary alcohol + NADP(+) = a ketone + H(+) + NADPH." ], [ "P25377-1", "1.1.1.2", "" ], [ "P25373-1", "1.11.1.9", "2 glutathione + H2O2 = glutathione disulfide + 2 H2O." ], [ "P25373-1", "2.5.1.18", "glutathione + RX = a halide anion + an S-substituted glutathione + H(+)." ], [ "P25373-1", "2.5.1.18", "" ], [ "P25373-1", "1.11.1.9", "" ], [ "Q04299-1", "3.1.3.84", "ADP-alpha-D-ribose 1''-phosphate + H2O = ADP-D-ribose + phosphate." ], [ "Q04299-1", "3.1.3.84", "" ], [ "Q03049-1", "1.1.1.-", "" ], [ "P38757-1", "3.1.3.16", "H2O + O-phospho-L-threonyl-[protein] = L-threonyl-[protein] + phosphate." ], [ "P38757-1", "3.1.3.16", "" ], [ "P38756-1", "6.1.-.-", "" ], [ "Q01976-1", "3.6.1.13", "ADP-D-ribose + H2O = AMP + D-ribose 5-phosphate + 2 H(+)." ], [ "Q01976-1", "3.6.1.13", "" ], [ "P38174-1", "3.4.11.18", "Release of N-terminal amino acids, preferentially methionine, from peptides and arylamides." ], [ "P38174-1", "3.4.11.18", "" ], [ "Q03220-1", "3.6.1.74", "a 5'-end triphospho-ribonucleoside in mRNA + H2O = a 5'-end diphospho-ribonucleoside in mRNA + H(+) + phosphate." ], [ "Q03220-1", "3.6.1.74", "" ], [ "Q07748-1", "2.-.-.-", "" ], [ "Q07747-1", "1.1.1.-", "" ], [ "P38179-1", "2.4.1.258", "a dolichyl beta-D-mannosyl phosphate + alpha-D-Man-(1->2)-alpha-D-Man-(1->2)-alpha-D-Man-(1->3)-[alpha-D-Man-(1->6)]-beta-D-Man-(1->4)-beta-D-GlcNAc-(1->4)-alpha-D-GlcNAc-diphosphodolichol = a dolichyl phosphate + alpha-D-Man-(1->2)-alpha-D-Man-(1->2)-alpha-D-Man-(1->3)-[alpha-D-Man-(1->3)-alpha-D-Man-(1->6)]-beta-D-Man-(1->4)-beta-D-GlcNAc-(1->4)-alpha-D-GlcNAc-diphosphodolichol + H(+)." ], [ "P38179-1", "2.4.1.258", "" ], [ "Q00246-1", "3.6.5.2", "GTP + H2O = GDP + H(+) + phosphate." ], [ "Q00246-1", "3.6.5.2", "" ], [ "Q06676-1", "3.6.1.-", "" ], [ "P16550-1", "2.7.7.5", "ADP + H(+) + sulfate = adenosine 5'-phosphosulfate + phosphate." ], [ "P16550-1", "2.7.7.53", "ADP + ATP + H(+) = P(1),P(4)-bis(5'-adenosyl) tetraphosphate + phosphate." ], [ "P21672-1", "1.17.4.1", "[thioredoxin]-disulfide + a 2'-deoxyribonucleoside 5'-diphosphate + H2O = [thioredoxin]-dithiol + a ribonucleoside 5'-diphosphate." ], [ "P21672-1", "1.17.4.1", "" ], [ "P38287-1", "2.4.1.370", "a 1D-myo-inositol-1-phospho-N-[(R)-2-hydroxy-very-long-chain fatty acyl]-(R)-4-hydroxysphingoid base + GDP-alpha-D-mannose = an alpha-D-mannosyl-(1<->6)-1D-myo-inositol-1-phospho-N-[(R)-2-hydroxy-very-long-chain fatty acyl]-(R)-4-hydroxysphingoid base + GDP + H(+)." ], [ "P38287-1", "2.4.1.370", "" ], [ "Q08985-1", "2.1.1.10", "L-homocysteine + S-methyl-L-methionine = H(+) + 2 L-methionine." ], [ "Q08985-1", "2.1.1.10", "" ], [ "Q12529-1", "2.1.1.-", "" ], [ "Q12525-1", "2.1.1.10", "L-homocysteine + S-methyl-L-methionine = H(+) + 2 L-methionine." ], [ "Q12525-1", "2.1.1.10", "" ], [ "Q12524-1", "3.6.1.-", "" ], [ "Q12524-1", "3.6.1.56", "2-oxo-dATP + H2O = 2-oxo-dAMP + diphosphate + H(+)." ], [ "P00924-1", "4.2.1.11", "(2R)-2-phosphoglycerate = H2O + phosphoenolpyruvate." ], [ "P00924-1", "4.2.1.11", "" ], [ "P38289-1", "3.1.-.-", "" ], [ "P40557-1", "5.3.4.1", "Catalyzes the rearrangement of -S-S- bonds in proteins." ], [ "P40557-1", "5.3.4.1", "" ], [ "Q01802-1", "2.6.1.1", "2-oxoglutarate + L-aspartate = L-glutamate + oxaloacetate." ], [ "Q01802-1", "2.6.1.1", "" ], [ "P31374-1", "2.7.11.1", "ATP + L-seryl-[protein] = ADP + H(+) + O-phospho-L-seryl-[protein]." ], [ "P31374-1", "2.7.11.1", "" ], [ "P00912-1", "5.3.1.24", "N-(5-phospho-beta-D-ribosyl)anthranilate = 1-(2-carboxyphenylamino)-1-deoxy-D-ribulose 5-phosphate." ], [ "P00912-1", "5.3.1.24", "" ], [ "P40553-1", "1.11.1.24", "[thioredoxin]-dithiol + a hydroperoxide = [thioredoxin]-disulfide + an alcohol + H2O." ], [ "P40553-1", "1.11.1.24", "" ], [ "Q12473-1", "1.16.1.9", "2 a Fe(II)-siderophore + H(+) + NADP(+) = 2 a Fe(III)-siderophore + NADPH." ], [ "Q12473-1", "1.16.1.9", "" ], [ "Q03530-1", "3.4.-.-", "" ], [ "Q03532-1", "3.6.4.13", "ATP + H2O = ADP + H(+) + phosphate." ], [ "Q03532-1", "3.6.4.13", "" ], [ "Q03533-1", "2.7.11.1", "ATP + L-seryl-[protein] = ADP + H(+) + O-phospho-L-seryl-[protein]." ], [ "P47177-1", "1.13.12.16", "ethylnitronate + O2 = acetaldehyde + chemical entity + H(+) + nitrite." ], [ "P47177-1", "1.13.12.16", "" ] ] }, "readme": "Name\n - Yeast Protein Enzyme Annotation (UniProtKB)\n\nVersion\n - v-2.2.1\n\nCreated on\n - 2022-08-30T14:44:26.008676\n\nModified on\n - 2023-09-11T21:13:01\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu]\n\nAuthors\n - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n - \n\nUsability Domain\n - The Yeast Protein Enzyme Annotation (UniProtKB) dataset contains yeast [taxid:559292] enzyme annotations for UniProtKB canonical accessions. The dataset contains ec numbers and enzyme activity that describes the enzymatic reactions. The dataset is derived form 2019-09 UniprotKB release. If you use this dataset please give proper attribution to UniProtKB and GlyGen\n\nDescription Domain\n Keywords\n - enzyme annotation\n - enzyme \n - UniProtKB\n - enzyme activity\n - EC number\n\n Pipeline Steps\n - Step-1: The script extracts the enzyme annotation triples from the triplestore for the UniProtKB canonical sequnces asnd extracts as a dataset in a csv format\n\nExecution Domain\n Scripts - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/make-protein-dataset.py\n\n\n Software Prerequisites\n Name: Python\n Version: 2.7.5\n URI: https://www.python.org/download/releases/2.7.5/\n\nI/O Domain\n Input Subdomain\n Name: uniprot-proteome-saccharomyces-cerevisiae.nt\n URI: https:/data.glygen.org/ln2downloads/ebi/2023_10_30/uniprot-proteome-saccharomyces-cerevisiae.nt\n Output Subdomain\n Name: yeast_protein_enzyme_annotation_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/yeast_protein_enzyme_annotation_uniprotkb.csv\n Name: yeast_protein_enzyme_annotation_uniprotkb.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/yeast_protein_enzyme_annotation_uniprotkb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"1776\"\n Name: \"enzyme_ec\"\n Description: \"Enzyme Commision number assigned to an enzyme by Nomenclature Committee of the International Union of Biochemistry and Molecular Biology (IUBMB)\"\n Unique Values: \"893\"\n Name: \"enzyme_activity\"\n Description: \"The catalytic reaction activity of an enzyme in UniProtKB\"\n Unique Values: \"793\"", "downloadurl": "/ln2data/releases/data/v-2.2.1/reviewed/yeast_protein_enzyme_annotation_uniprotkb.csv" }