{ "bcoid": "GLY_000325", "title": "Rat Protein Enzyme Annotation (UniProtKB)", "description": "The Rat Protein Enzyme Annotation (UniProtKB) dataset contains rat [taxid:10116] enzyme annotations for ...", "filename": "rat_protein_enzyme_annotation_uniprotkb.csv", "filetype": "csv", "categories": { "species": "Rattus norvegicus", "molecule": "Protein", "tags": "enzyme annotation", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "D4A584-1...", "2.7.10.2..." ], [ "D4A584-1...", "2.7.10.2..." ] ], "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" } ], [ "D4A584-1", "2.7.10.2", "ATP + a [protein]-L-tyrosine = ADP + a [protein]-L-tyrosine phosphate." ], [ "D4A584-1", "2.7.10.2", "" ], [ "D4A628-1", "2.7.7.7", "Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)." ], [ "D4A628-1", "2.7.7.7", "" ], [ "A0A0G2K0H9-1", "3.6.4.12", "ATP + H(2)O = ADP + phosphate." ], [ "A0A0G2K0H9-1", "3.6.4.12", "" ], [ "Q5RJK3-1", "2.1.1.221", "S-adenosyl-L-methionine + guanine(9) in tRNA = S-adenosyl-L-homocysteine + N(1)-methylguanine(9) in tRNA." ], [ "Q5RJK3-1", "2.1.1.221", "" ], [ "P30349-1", "3.3.2.6", "(7E,9E,11Z,14Z)-(5S,6S)-5,6-epoxyicosa-7,9,11,14-tetraenoate + H(2)O = (6Z,8E,10E,14Z)-(5S,12R)-5,12-dihydroxyicosa-6,8,10,14-tetraenoate." ], [ "P30349-1", "3.4.11.4", "Release of the N-terminal residue from a tripeptide." ], [ "P30349-1", "3.3.2.6", "" ], [ "P31214-1", "1.3.1.22", "A 3-oxo-5-alpha-steroid + NADP(+) = a 3-oxo-Delta(4)-steroid + NADPH." ], [ "P31214-1", "1.3.1.22", "" ], [ "P13697-1", "1.1.1.40", "Oxaloacetate = pyruvate + CO(2)." ], [ "P13697-1", "1.1.1.40", "" ], [ "Q6MG55-1", "3.1.1.23", "Hydrolyzes glycerol monoesters of long-chain fatty acids." ], [ "Q6MG55-1", "3.1.-.-", "" ], [ "Q6MG55-1", "3.1.-.-", "" ], [ "Q5PPI6-1", "3.1.-.-", "" ], [ "Q5PPI6-1", "3.1.-.-", "" ], [ "Q02769-1", "2.5.1.21", "2 farnesyl diphosphate + NAD(P)H = squalene + 2 diphosphate + NAD(P)(+)." ], [ "Q02769-1", "2.5.1.21", "" ], [ "O35532-1", "1.14.18.9", "4,4-dimethyl-5-alpha-cholest-7-en-3-beta-ol + 6 ferrocytochrome b5 + 3 O(2) + 6 H(+) = 3-beta-hydroxy-4-beta-methyl-5-alpha-cholest-7-ene-4-alpha-carboxylate + 6 ferricytochrome b5 + 4 H(2)O." ], [ "O35532-1", "1.14.18.9", "" ], [ "D4A7E8-1", "1.5.1.20", "5-methyltetrahydrofolate + NAD(P)(+) = 5,10-methylenetetrahydrofolate + NAD(P)H." ], [ "D4A7E8-1", "1.5.1.20", "" ], [ "Q9WUD9-1", "2.7.10.2", "ATP + a [protein]-L-tyrosine = ADP + a [protein]-L-tyrosine phosphate." ], [ "Q9WUD9-1", "2.7.10.2", "" ], [ "D3ZN41-1", "7.6.2.1", "ATP + H(2)O + phospholipid(Side 1) = ADP + phosphate + phospholipid(Side 2)." ], [ "D3ZN41-1", "7.6.2.1", "" ], [ "Q7TNK6-1", "2.1.1.-", "" ], [ "Q7TNK6-1", "2.1.1.-", "" ], [ "D3ZN47-1", "2.7.1.30", "ATP + glycerol = ADP + sn-glycerol 3-phosphate." ], [ "D3ZN47-1", "2.7.1.30", "" ], [ "P31210-1", "1.3.1.3", "5-beta-cholestan-3-one + NADP(+) = cholest-4-en-3-one + NADPH." ], [ "P31210-1", "1.3.1.3", "" ], [ "D3ZC66-1", "2.4.1.-", "" ], [ "D3ZC66-1", "2.4.1.-", "" ], [ "O88483-1", "3.1.3.43", "[Pyruvate dehydrogenase (acetyl-transferring)] phosphate + H(2)O = [pyruvate dehydrogenase (acetyl-transferring)] + phosphate." ], [ "O88483-1", "3.1.3.43", "" ], [ "Q5M9G0-1", "3.5.4.12", "dCMP + H(2)O = dUMP + NH(3)." ], [ "Q5M9G0-1", "3.5.4.12", "" ], [ "D3ZP13-1", "1.8.3.2", "2 R'C(R)SH + O(2) = R'C(R)S-S(R)CR' + H(2)O(2)." ], [ "D3ZP13-1", "1.8.3.2", "" ], [ "Q5RKI1-1", "3.6.4.13", "ATP + H(2)O = ADP + phosphate." ], [ "Q5RKI1-1", "3.6.4.13", "" ], [ "M0R412-1", "3.2.1.-", "" ], [ "M0R412-1", "3.2.1.-", "" ], [ "Q63562-1", "2.7.11.25", "ATP + a protein = ADP + a phosphoprotein." ], [ "Q63562-1", "2.7.11.25", "" ], [ "D3ZD07-1", "1.14.13.8", "N,N-dimethylaniline + NADPH + O(2) = N,N-dimethylaniline N-oxide + NADP(+) + H(2)O." ], [ "D3ZD07-1", "1.14.13.8", "" ], [ "P69060-1", "2.7.7.43", "CTP + N-acylneuraminate = diphosphate + CMP-N-acylneuraminate." ], [ "P69060-1", "2.7.7.43", "" ], [ "Q9EQS0-1", "2.2.1.2", "Sedoheptulose 7-phosphate + D-glyceraldehyde 3-phosphate = D-erythrose 4-phosphate + D-fructose 6-phosphate." ], [ "Q9EQS0-1", "2.2.1.2", "" ], [ "D3ZD03-1", "2.7.10.2", "ATP + a [protein]-L-tyrosine = ADP + a [protein]-L-tyrosine phosphate." ], [ "D3ZD03-1", "2.7.10.2", "" ], [ "P70563-1", "3.6.1.-", "" ], [ "P70563-1", "3.6.1.-", "" ], [ "Q32Q05-1", "3.4.19.12", "Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal)." ], [ "Q32Q05-1", "3.4.19.12", "" ], [ "M0RCZ9-1", "5.2.1.8", "Peptidylproline (omega=180) = peptidylproline (omega=0)." ], [ "M0RCZ9-1", "5.2.1.8", "" ], [ "Q3SWT6-1", "3.1.3.16", "[a protein]-serine/threonine phosphate + H(2)O = [a protein]-serine/threonine + phosphate." ], [ "Q3SWT6-1", "3.1.3.16", "" ], [ "D3ZHF8-1", "3.6.5.n1", "GTP + H(2)O = GDP + phosphate." ], [ "D3ZHF8-1", "3.6.5.n1", "" ], [ "F1LS72-1", "2.3.2.-", "" ], [ "F1LS72-1", "2.3.2.-", "" ], [ "Q5BK17-1", "1.21.1.1", "L-tyrosine + 2 NADP(+) + 2 iodide = 3,5-diiodo-L-tyrosine + 2 NADPH." ], [ "Q5BK17-1", "1.21.1.1", "" ], [ "P39878-1", "3.1.1.4", "Phosphatidylcholine + H(2)O = 1-acylglycerophosphocholine + a carboxylate." ], [ "P39878-1", "3.1.1.4", "" ], [ "P56574-1", "1.1.1.42", "Isocitrate + NADP(+) = 2-oxoglutarate + CO(2) + NADPH." ], [ "P56574-1", "1.1.1.42", "" ], [ "Q5BK10-1", "3.4.22.-", "" ], [ "Q5BK10-1", "3.4.22.-", "" ], [ "P48965-1", "3.1.3.48", "Protein tyrosine phosphate + H(2)O = protein tyrosine + phosphate." ], [ "P48965-1", "3.1.3.48", "" ], [ "Q4V8J4-1", "2.3.1.51", "Acyl-CoA + 1-acyl-sn-glycerol 3-phosphate = CoA + 1,2-diacyl-sn-glycerol 3-phosphate." ], [ "Q4V8J4-1", "2.3.1.15", "Acyl-CoA + sn-glycerol 3-phosphate = CoA + 1-acyl-sn-glycerol 3-phosphate." ], [ "Q4V8J4-1", "2.3.1.15", "" ], [ "P52873-1", "6.4.1.1", "ATP + pyruvate + HCO(3)(-) = ADP + phosphate + oxaloacetate." ] ] }, "readme": "Name\n - Rat Protein Enzyme Annotation (UniProtKB)\n\nVersion\n - 1.8.25\n\nCreated on\n - 2019-12-01T16:01:52.242488\n\nModified on\n - 2020-04-10T12:15:03.261517\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Rahi Navelkar [rsn13@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Xavier Holmes [xavierh@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 Rat Protein Enzyme Annotation (UniProtKB) dataset contains rat [taxid:10116] 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/GW-HIVE/glygen-backend-integration/blob/master/pipeline/integrator/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-rattus-norvegicus.nt\n URI: https://data.glygen.org/ln2wwwdata/reviewed/uniprot-proteome-rattus-norvegicus.nt\n Name: rat_protein_masterlist.csv\n URI: https://data.glygen.org/ln2wwwdata/reviewed/rat_protein_masterlist.csv\n Output Subdomain\n Name: rat_protein_enzyme_annotation_uniprotkb.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_enzyme_annotation_uniprotkb.csv\n Name: rat_protein_enzyme_annotation_uniprotkb.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/rat_protein_enzyme_annotation_uniprotkb.stat.csv\n\nFields\n Name: \"src_xref_key\"\n Description: \"Source Xref key\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"119\"\n Name: \"title\"\n Description: \"Title of the published article in the journal\"\n Unique Values: \"119\"\n Name: \"src_xref_id\"\n Description: \"Source X-ref ID\"\n Unique Values: \"120\"\n Name: \"journal_name\"\n Description: \"The name of the journal in which the article is published\"\n Unique Values: \"49\"\n Name: \"authors\"\n Description: \"NA\"\n Unique Values: \"118\"\n Name: \"publication_date\"\n Description: \"Contains the full date on which the issue of the journal was published. Sourced from MEDLINE/PubMed data element(fields) description.\"\n Unique Values: \"117\"\n Name: \"glytoucan_ac\"\n Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n Unique Values: \"115\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-1.8.25/reviewed/rat_protein_enzyme_annotation_uniprotkb.csv" }