{ "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", "" ], [ "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", "" ], [ "P31210-1", "1.3.1.3", "5-beta-cholestan-3-one + NADP(+) = cholest-4-en-3-one + NADPH." ], [ "P31210-1", "1.3.1.3", "" ], [ "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.-.-", "" ], [ "F1M021-1", "2.4.1.244", "UDP-N-acetyl-alpha-D-galactosamine + N-acetyl-beta-D-glucosaminyl group = UDP + N-acetyl-beta-D-galactosaminyl-(1->4)-N-acetyl-beta-D-glucosaminyl group." ], [ "F1M021-1", "2.4.1.244", "" ], [ "Q02769-1", "2.5.1.21", "2 farnesyl diphosphate + NAD(P)H = squalene + 2 diphosphate + NAD(P)(+)." ], [ "Q02769-1", "2.5.1.21", "" ], [ "Q62844-1", "2.7.10.2", "ATP + a [protein]-L-tyrosine = ADP + a [protein]-L-tyrosine phosphate." ], [ "Q62844-1", "2.7.10.2", "" ], [ "Q5BKD0-1", "2.7.7.84", "3 ATP = pppA2'p5'A2'p5'A + 2 diphosphate." ], [ "Q5BKD0-1", "2.7.7.84", "" ], [ "Q5RJZ1-1", "3.6.4.12", "ATP + H(2)O = ADP + phosphate." ], [ "Q5RJZ1-1", "3.6.4.12", "" ], [ "P62255-1", "2.3.2.23", "S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine + [E2 ubiquitin-conjugating enzyme]-L-cysteine = [E1 ubiquitin-activating enzyme]-L-cysteine + S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine." ], [ "P62255-1", "2.3.2.23", "" ], [ "Q62940-1", "2.3.2.26", "S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine." ], [ "Q62940-1", "2.3.2.26", "" ], [ "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", "" ], [ "A0A0G2K730-1", "5.4.99.12", "tRNA uridine(38-40) = tRNA pseudouridine(38-40)." ], [ "A0A0G2K730-1", "5.4.99.12", "" ], [ "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.-", "" ], [ "D3ZN47-1", "2.7.1.30", "ATP + glycerol = ADP + sn-glycerol 3-phosphate." ], [ "D3ZN47-1", "2.7.1.30", "" ], [ "F1LPV0-1", "6.1.1.22", "ATP + L-asparagine + tRNA(Asn) = AMP + diphosphate + L-asparaginyl-tRNA(Asn)." ], [ "F1LPV0-1", "6.1.1.22", "" ], [ "P18757-1", "4.4.1.1", "L-cystathionine + H(2)O = L-cysteine + NH(3) + 2-oxobutanoate." ], [ "P18757-1", "4.4.1.1", "" ], [ "P20717-1", "3.5.3.15", "Protein L-arginine + H(2)O = protein L-citrulline + NH(3)." ], [ "P20717-1", "3.5.3.15", "" ], [ "O08874-1", "2.7.11.13", "ATP + a protein = ADP + a phosphoprotein." ], [ "O08874-1", "2.7.11.13", "" ], [ "Q6AXV9-1", "1.20.4.2", "Methylarsonate + 2 glutathione = methylarsonite + glutathione disulfide + H(2)O." ], [ "Q6AXV9-1", "1.8.5.1", "2 glutathione + dehydroascorbate = glutathione disulfide + ascorbate." ], [ "Q6AXV9-1", "2.5.1.18", "RX + glutathione = HX + R-S-glutathione." ], [ "Q6AXV9-1", "1.8.5.1", "" ], [ "Q6AXV9-1", "2.5.1.18", "" ], [ "Q6AXV9-1", "1.20.4.2", "" ], [ "P13107-1", "1.14.14.1", "RH + [reduced NADPH--hemoprotein reductase] + O(2) = ROH + [oxidized NADPH--hemoprotein reductase] + H(2)O." ], [ "P13107-1", "1.14.14.1", "" ], [ "D3ZD94-1", "2.5.1.18", "RX + glutathione = HX + R-S-glutathione." ], [ "D3ZD94-1", "2.5.1.18", "" ], [ "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", "" ], [ "Q8VIE2-1", "3.1.4.-", "" ], [ "Q5RKI3-1", "2.7.7.7", "Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)." ], [ "Q5RKI3-1", "4.2.99.-", "" ], [ "Q5RKI3-1", "2.7.7.7", "" ], [ "P29321-1", "2.7.10.1", "ATP + a [protein]-L-tyrosine = ADP + a [protein]-L-tyrosine phosphate." ], [ "P29321-1", "2.7.10.1", "" ], [ "M0R412-1", "3.2.1.-", "" ], [ "D4A830-1", "3.6.1.1", "Diphosphate + H(2)O = 2 phosphate." ], [ "D4A830-1", "3.6.1.1", "" ], [ "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.-", "" ], [ "D4AA47-1", "7.6.2.1", "ATP + H(2)O + phospholipid(Side 1) = ADP + phosphate + phospholipid(Side 2)." ], [ "D4AA47-1", "7.6.2.1", "" ], [ "D4A1I9-1", "5.2.1.8", "Peptidylproline (omega=180) = peptidylproline (omega=0)." ], [ "D4A1I9-1", "5.2.1.8", "" ], [ "D4A5R0-1", "5.2.1.8", "Peptidylproline (omega=180) = peptidylproline (omega=0)." ], [ "D4A5R0-1", "5.2.1.8", "" ], [ "Q5I0M0-1", "2.1.1.357", "2 S-adenosyl-L-methionine + a [histone H3]-L-lysine(36) = 2 S-adenosyl-L-homocysteine + a [histone H3]-N(6),N(6)-dimethyl-L-lysine(36)." ], [ "Q5I0M0-1", "2.1.1.357", "" ], [ "Q3SWT6-1", "3.1.3.16", "[a protein]-serine/threonine phosphate + H(2)O = [a protein]-serine/threonine + phosphate." ] ] }, "readme": "Name\n - Rat Protein Enzyme Annotation (UniProtKB)\n\nVersion\n - 1.11.2\n\nCreated on\n - 2019-12-01T16:01:52.242488\n\nModified on\n - 2022-01-12T16:26:23.438038\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], Karina Martinez [karinamartinez@gwu.edu], Amanda Bell [amandab2140@gwu.edu], Jonathon Keeney [keeneyjg@gwu.edu], Millicent Quartey [mquartey@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 sequences and 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: rat_protein_masterlist.csv\n URI: https://data.glygen.org//ln2data/releases/data/v-1.11.2/reviewed/rat_protein_masterlist.csv\n Name: uniprot-proteome-rattus-norvegicus.nt\n URI: https://data.glygen.org//ln2data/releases/data/v-1.11.2/reviewed/rat_protein_ntdata.nt\n Output Subdomain\n Name: rat_protein_enzyme_annotation_uniprotkb.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.12.1/reviewed/rat_protein_enzyme_annotation_uniprotkb.csv\n Name: rat_protein_enzyme_annotation_uniprotkb.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.12.1/reviewed/rat_protein_enzyme_annotation_uniprotkb.stat.csv", "downloadurl": "/ln2data/releases/data/v-1.12.1/reviewed/rat_protein_enzyme_annotation_uniprotkb.csv" }