{ "bcoid": "GLY_000599", "title": "Rat UniProtKB Xref Rhea", "description": "The Rat UniProtKB Xref Rhea contains rat [taxid:10116] UniProtKB canonical accessions cross-referenced ...", "filename": "rat_protein_xref_rhea.csv", "filetype": "csv", "categories": { "species": [ "Rattus norvegicus" ], "molecule": [ "Protein" ], "tag": [ "Rhea cross-references" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "Q5RJZ1-1...", "protein_xref..." ], [ "Q0HA29-1...", "protein_xref..." ] ], "headers": [ "uniprotkb_ca...", "xref_key..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" }, { "type": "string", "label": "xref_label" } ], [ "Q5RJZ1-1", "protein_xref_rhea", "13065", "ATP + H2O = ADP + H(+) + phosphate" ], [ "Q0HA29-1", "protein_xref_rhea", "21360", "ATP + beta-nicotinamide D-ribonucleotide + H(+) = diphosphate + NAD(+)" ], [ "Q0HA29-1", "protein_xref_rhea", "22860", "ATP + H(+) + nicotinate beta-D-ribonucleotide = deamido-NAD(+) + diphosphate" ], [ "Q9WVK3-1", "protein_xref_rhea", "33763", "a (2E)-enoyl-CoA + H(+) + NADPH = a 2,3-saturated acyl-CoA + NADP(+)" ], [ "Q9WVK3-1", "protein_xref_rhea", "44952", "(2E)-octenoyl-CoA + H(+) + NADPH = NADP(+) + octanoyl-CoA" ], [ "Q9WVK3-1", "protein_xref_rhea", "44956", "(2E)-hexenoyl-CoA + H(+) + NADPH = hexanoyl-CoA + NADP(+)" ], [ "Q9WVK3-1", "protein_xref_rhea", "44960", "(2E)-decenoyl-CoA + H(+) + NADPH = decanoyl-CoA + NADP(+)" ], [ "Q9WVK3-1", "protein_xref_rhea", "44964", "(2E)-dodecenoyl-CoA + H(+) + NADPH = dodecanoyl-CoA + NADP(+)" ], [ "Q9WVK3-1", "protein_xref_rhea", "44968", "(2E)-tetradecenoyl-CoA + H(+) + NADPH = NADP(+) + tetradecanoyl-CoA" ], [ "P07727-1", "protein_xref_rhea", "29823", "chloride(in) = chloride(out)" ], [ "D4A6Q6-1", "protein_xref_rhea", "13065", "ATP + H2O = ADP + H(+) + phosphate" ], [ "Q9JHY2-1", "protein_xref_rhea", "35031", "L-serine(in) = L-serine(out)" ], [ "A0A8I6GF85-1", "protein_xref_rhea", "45680", "N-(hexadecanoyl)-sphing-4-enine-1-phosphate(in) = N-(hexadecanoyl)-sphing-4-enine-1-phosphate(out)" ], [ "A0A8I6GF85-1", "protein_xref_rhea", "45688", "N-(9Z-octadecenoyl)-sphing-4-enine-1-phosphate(in) = N-(9Z-octadecenoyl)-sphing-4-enine-1-phosphate(out)" ], [ "Q9JJ05-1", "protein_xref_rhea", "15621", "an N-acetyl-alpha-D-galactosaminyl derivative + UDP-alpha-D-galactose = a beta-D-galactosyl-(1->3)-N-acetyl-alpha-D-galactosaminyl derivative + H(+) + UDP" ], [ "Q9Z0V5-1", "protein_xref_rhea", "62620", "[thioredoxin]-dithiol + a hydroperoxide = [thioredoxin]-disulfide + an alcohol + H2O" ], [ "Q9R1N3-1", "protein_xref_rhea", "70267", "hydrogencarbonate(in) + Na(+)(in) = hydrogencarbonate(out) + Na(+)(out)" ], [ "Q9R1N3-1", "protein_xref_rhea", "70267", "hydrogencarbonate(in) + Na(+)(in) = hydrogencarbonate(out) + Na(+)(out)" ], [ "Q9R1N3-1", "protein_xref_rhea", "70267", "hydrogencarbonate(in) + Na(+)(in) = hydrogencarbonate(out) + Na(+)(out)" ], [ "D3ZFP4-1", "protein_xref_rhea", "13065", "ATP + H2O = ADP + H(+) + phosphate" ], [ "A0A1W2Q641-1", "protein_xref_rhea", "57720", "ATP + 4 H(+)(in) + H2O = ADP + 5 H(+)(out) + phosphate" ], [ "P09875-1", "protein_xref_rhea", "21032", "glucuronate acceptor + UDP-alpha-D-glucuronate = acceptor beta-D-glucuronoside + H(+) + UDP" ], [ "A0A8I6ALX9-1", "protein_xref_rhea", "11092", "NAD(+) + sn-glycerol 3-phosphate = dihydroxyacetone phosphate + H(+) + NADH" ], [ "D3ZCS9-1", "protein_xref_rhea", "23736", "5-hydroxyisourate + H2O = 5-hydroxy-2-oxo-4-ureido-2,5-dihydro-1H-imidazole-5-carboxylate + H(+)" ], [ "P63088-1", "protein_xref_rhea", "20629", "H2O + O-phospho-L-seryl-[protein] = L-seryl-[protein] + phosphate" ], [ "P63088-1", "protein_xref_rhea", "47004", "H2O + O-phospho-L-threonyl-[protein] = L-threonyl-[protein] + phosphate" ], [ "F1LP13-1", "protein_xref_rhea", "10684", "H2O + O-phospho-L-tyrosyl-[protein] = L-tyrosyl-[protein] + phosphate" ], [ "P63331-1", "protein_xref_rhea", "47004", "H2O + O-phospho-L-threonyl-[protein] = L-threonyl-[protein] + phosphate" ], [ "P53670-1", "protein_xref_rhea", "17989", "ATP + L-seryl-[protein] = ADP + H(+) + O-phospho-L-seryl-[protein]" ], [ "P53670-1", "protein_xref_rhea", "46608", "ATP + L-threonyl-[protein] = ADP + H(+) + O-phospho-L-threonyl-[protein]" ], [ "D3ZT64-1", "protein_xref_rhea", "38663", "a 1,2-diacyl-sn-glycero-3-phospho-L-serine(in) = a 1,2-diacyl-sn-glycero-3-phospho-L-serine(out)" ], [ "D3ZT64-1", "protein_xref_rhea", "38895", "a 1,2-diacyl-sn-glycero-3-phosphoethanolamine(in) = a 1,2-diacyl-sn-glycero-3-phosphoethanolamine(out)" ], [ "D4AE80-1", "protein_xref_rhea", "67484", "a 5'-end (N(7)-methyl 5'-triphosphoguanosine)-ribonucleoside in mRNA + H2O = a 5'-end phospho-ribonucleoside in mRNA + 2 H(+) + N(7)-methyl-GDP" ], [ "Q00972-1", "protein_xref_rhea", "17301", "ATP + L-seryl-[3-methyl-2-oxobutanoate dehydrogenase] = ADP + H(+) + O-phospho-L-seryl-[3-methyl-2-oxobutanoate dehydrogenase]" ], [ "Q00972-1", "protein_xref_rhea", "17989", "ATP + L-seryl-[protein] = ADP + H(+) + O-phospho-L-seryl-[protein]" ], [ "E9PSY0-1", "protein_xref_rhea", "10596", "ATP + L-tyrosyl-[protein] = ADP + H(+) + O-phospho-L-tyrosyl-[protein]" ], [ "A0A8I6GDZ5-1", "protein_xref_rhea", "50960", "cytidine(32) in tRNA(Thr) + S-adenosyl-L-methionine = H(+) + N(3)-methylcytidine(32) in tRNA(Thr) + S-adenosyl-L-homocysteine" ], [ "A0A8I6GDZ5-1", "protein_xref_rhea", "60912", "cytidine(32) in tRNA(Arg)(CCU) + S-adenosyl-L-methionine = H(+) + N(3)-methylcytidine(32) in tRNA(Arg)(CCU) + S-adenosyl-L-homocysteine" ], [ "P21575-1", "protein_xref_rhea", "19669", "GTP + H2O = GDP + H(+) + phosphate" ], [ "P21775-1", "protein_xref_rhea", "18161", "acetyl-CoA + tetradecanoyl-CoA = 3-oxohexadecanoyl-CoA + CoA" ], [ "P21775-1", "protein_xref_rhea", "21036", "2 acetyl-CoA = acetoacetyl-CoA + CoA" ], [ "P21775-1", "protein_xref_rhea", "21564", "acetyl-CoA + an acyl-CoA = a 3-oxoacyl-CoA + CoA" ], [ "P21775-1", "protein_xref_rhea", "31203", "acetyl-CoA + hexanoyl-CoA = 3-oxooctanoyl-CoA + CoA" ], [ "P21775-1", "protein_xref_rhea", "40343", "3-oxohexadecanedioyl-CoA + CoA = acetyl-CoA + tetradecanedioyl-CoA" ], [ "P21775-1", "protein_xref_rhea", "39131", "3-oxo-(6Z,9Z,12Z,15Z,18Z,21Z)-tetracosahexaenoyl-CoA + CoA = (4Z,7Z,10Z,13Z,16Z,19Z)-docosahexaenoyl-CoA + acetyl-CoA" ], [ "Q64604-1", "protein_xref_rhea", "10684", "H2O + O-phospho-L-tyrosyl-[protein] = L-tyrosyl-[protein] + phosphate" ], [ "D3ZUX1-1", "protein_xref_rhea", "19049", "(5R)-5-hydroxy-L-lysine + GTP = (5R)-5-phosphooxy-L-lysine + GDP + H(+)" ], [ "Q9JLJ3-1", "protein_xref_rhea", "17985", "4-(trimethylamino)butanal + H2O + NAD(+) = 4-(trimethylamino)butanoate + 2 H(+) + NADH" ], [ "Q812E8-1", "protein_xref_rhea", "24384", "ATP + deamido-NAD(+) + H2O + L-glutamine = AMP + diphosphate + H(+) + L-glutamate + NAD(+)" ], [ "Q63285-1", "protein_xref_rhea", "17989", "ATP + L-seryl-[protein] = ADP + H(+) + O-phospho-L-seryl-[protein]" ], [ "Q63285-1", "protein_xref_rhea", "46608", "ATP + L-threonyl-[protein] = ADP + H(+) + O-phospho-L-threonyl-[protein]" ], [ "Q62730-1", "protein_xref_rhea", "14929", "NAD(+) + testosterone = androst-4-ene-3,17-dione + H(+) + NADH" ], [ "Q62730-1", "protein_xref_rhea", "24612", "17beta-estradiol + NAD(+) = estrone + H(+) + NADH" ], [ "Q62730-1", "protein_xref_rhea", "41992", "17beta-hydroxy-5alpha-androstan-3-one + NAD(+) = 5alpha-androstan-3,17-dione + H(+) + NADH" ], [ "Q62730-1", "protein_xref_rhea", "42108", "(20S)-hydroxypregn-4-en-3-one + NAD(+) = H(+) + NADH + progesterone" ], [ "A0A0G2JXG2-1", "protein_xref_rhea", "60200", "2 2-oxoglutarate + N(6),N(6),N(6)-trimethyl-L-lysyl(9)-[histone H3] + 2 O2 = 2 CO2 + 2 formaldehyde + N(6)-methyl-L-lysyl(9)-[histone H3] + 2 succinate" ], [ "P40329-1", "protein_xref_rhea", "20301", "ATP + L-arginine + tRNA(Arg) = AMP + diphosphate + L-arginyl-tRNA(Arg)" ], [ "A0A8I5ZJI2-1", "protein_xref_rhea", "18673", "ATP + L-seryl-[receptor-protein] = ADP + H(+) + O-phospho-L-seryl-[receptor-protein]" ], [ "A0A8I5ZJI2-1", "protein_xref_rhea", "44880", "ATP + L-threonyl-[receptor-protein] = ADP + H(+) + O-phospho-L-threonyl-[receptor-protein]" ], [ "Q9Z1Z1-1", "protein_xref_rhea", "17989", "ATP + L-seryl-[protein] = ADP + H(+) + O-phospho-L-seryl-[protein]" ], [ "Q9Z1Z1-1", "protein_xref_rhea", "46608", "ATP + L-threonyl-[protein] = ADP + H(+) + O-phospho-L-threonyl-[protein]" ], [ "Q9Z1Z6-1", "protein_xref_rhea", "20629", "H2O + O-phospho-L-seryl-[protein] = L-seryl-[protein] + phosphate" ], [ "Q9Z1Z6-1", "protein_xref_rhea", "47004", "H2O + O-phospho-L-threonyl-[protein] = L-threonyl-[protein] + phosphate" ], [ "P05708-1", "protein_xref_rhea", "17825", "ATP + D-glucose = ADP + D-glucose 6-phosphate + H(+)" ], [ "P05708-1", "protein_xref_rhea", "22740", "ATP + D-hexose = ADP + D-hexose 6-phosphate + H(+)" ], [ "A0A8I5ZP97-1", "protein_xref_rhea", "10596", "ATP + L-tyrosyl-[protein] = ADP + H(+) + O-phospho-L-tyrosyl-[protein]" ], [ "A0A8I5ZP97-1", "protein_xref_rhea", "17989", "ATP + L-seryl-[protein] = ADP + H(+) + O-phospho-L-seryl-[protein]" ], [ "A0A8I5ZP97-1", "protein_xref_rhea", "46608", "ATP + L-threonyl-[protein] = ADP + H(+) + O-phospho-L-threonyl-[protein]" ], [ "Q9R1T5-1", "protein_xref_rhea", "10872", "H2O + N-acyl-L-aspartate = a carboxylate + L-aspartate" ], [ "A0A1W2Q5Z7-1", "protein_xref_rhea", "21616", "a beta-D-galactosyl-(1->3)-N-acetyl-alpha-D-galactosaminyl derivative + CMP-N-acetyl-beta-neuraminate = an N-acetyl-alpha-neuraminyl-(2->3)-beta-D-galactosyl-(1->3)-N-acetyl-alpha-D-galactosaminyl derivative + CMP + H(+)" ], [ "A0A1W2Q5Z7-1", "protein_xref_rhea", "18021", "a ganglioside GM1 (d18:1(4E)) + CMP-N-acetyl-beta-neuraminate = a ganglioside GD1a (d18:1(4E)) + CMP + H(+)" ], [ "A0A1W2Q5Z7-1", "protein_xref_rhea", "47560", "a ganglioside GA1 (d18:1(4E)) + CMP-N-acetyl-beta-neuraminate = a ganglioside GM1b (d18:1(4E)) + CMP + H(+)" ], [ "A0A1W2Q5Z7-1", "protein_xref_rhea", "48244", "a ganglioside GA1 + CMP-N-acetyl-beta-neuraminate = a ganglioside GM1b + CMP + H(+)" ], [ "A0A1W2Q5Z7-1", "protein_xref_rhea", "48248", "CMP-N-acetyl-beta-neuraminate + ganglioside GM1 (d18:1(4E)/18:0) = CMP + ganglioside GD1a (18:1(4E)/18:0) + H(+)" ], [ "Q6MGB4-1", "protein_xref_rhea", "29351", "Zn(2+)(in) = Zn(2+)(out)" ], [ "Q924S1-1", "protein_xref_rhea", "19709", "a 1-acyl-sn-glycero-3-phosphate + an acyl-CoA = a 1,2-diacyl-sn-glycero-3-phosphate + CoA" ], [ "Q924S1-1", "protein_xref_rhea", "55300", "(4Z,7Z,10Z,13Z,16Z,19Z)-docosahexaenoyl-CoA + 1-hexadecanoyl-sn-glycero-3-phosphate = 1-hexadecanoyl-2-(4Z,7Z,10Z,13Z,16Z,19Z-docosahexaenoyl)-sn-glycero-3-phosphate + CoA" ], [ "Q924S1-1", "protein_xref_rhea", "55304", "(9Z,12Z)-octadecadienoyl-CoA + 1-octadecanoyl-sn-glycero-3-phosphate = 1-octadecanoyl-2-(9Z,12Z-octadecadienoyl)-sn-glycero-3-phosphate + CoA" ], [ "Q924S1-1", "protein_xref_rhea", "55308", "(4Z,7Z,10Z,13Z,16Z,19Z)-docosahexaenoyl-CoA + 1-octadecanoyl-sn-glycero-3-phosphate = 1-octadecanoyl-2-(4Z,7Z,10Z,13Z,16Z,19Z-docosahexaenoyl)-sn-glycero-3-phosphate + CoA" ], [ "Q924S1-1", "protein_xref_rhea", "55312", "(4Z,7Z,10Z,13Z,16Z,19Z)-docosahexaenoyl-CoA + 1-(9Z-octadecenoyl)-sn-glycero-3-phosphate = 1-(9Z-octadecenoyl)-2-(4Z,7Z,10Z,13Z,16Z,19Z-docosahexaenoyl)-sn-glycero-3-phosphate + CoA" ], [ "D4ADE5-1", "protein_xref_rhea", "51736", "L-lysyl-[protein] + S-adenosyl-L-methionine = H(+) + N(6)-methyl-L-lysyl-[protein] + S-adenosyl-L-homocysteine" ], [ "D4ADE5-1", "protein_xref_rhea", "60264", "L-lysyl(4)-[histone H3] + S-adenosyl-L-methionine = H(+) + N(6)-methyl-L-lysyl(4)-[histone H3] + S-adenosyl-L-homocysteine" ], [ "F1MAB7-1", "protein_xref_rhea", "10272", "a 1,2-diacyl-sn-glycerol + ATP = a 1,2-diacyl-sn-glycero-3-phosphate + ADP + H(+)" ], [ "F1MAB7-1", "protein_xref_rhea", "40327", "1,2-di-(9Z-octadecenoyl)-sn-glycerol + ATP = 1,2-di-(9Z-octadecenoyl)-sn-glycero-3-phosphate + ADP + H(+)" ] ] }, "readme": "Name\n - Rat UniProtKB Xref Rhea\n\nVersion\n - v-2.4.1\n\nCreated on\n - 2021-10-15T06:39:59.122715\n\nModified on\n - 2022-09-26T09:08:12.587959\n\nCreated by\n - [jeetvora@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Luke Johnson [luke.johnson@email.gwu.edu], Urnisha Bhuiyan [sbhuiyan28@email.gwu.edu], Cyrus Au-Yeung [cyruschauyeung@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu]\n\nAuthors\n - \n\nChecksum\n - \n\nUsability Domain\n - The Rat UniProtKB Xref Rhea contains rat [taxid:10116] UniProtKB canonical accessions cross-referenced to Rhea database accessions/identifiers. The dataset is derived from 2019-09 UniProtKB release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\n - Rhea\n\nDescription Domain\n Keywords\n - reactions\n - Rhea\n - cross-reference\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB canonical accessions that are cross-referenced to Rhea database accessions/identifiers from the triplestore containing triples from nt file and extracts the data as a csv dataset\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-rattus-norvegicus.nt\n URI: https:/data.glygen.org/ln2downloads/ebi/2024_02_13/uniprot-proteome-rattus-norvegicus.nt\n Output Subdomain\n Name: rat_protein_xref_rhea.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/rat_protein_xref_rhea.csv\n Name: rat_protein_xref_rhea.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/rat_protein_xref_rhea.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"3031\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"4178\"\n Name: \"xref_label\"\n Description: \"Label/Name associated with x-ref\"\n Unique Values: \"4178\"", "downloadurl": "/ln2data/releases/data/v-2.4.1/reviewed/rat_protein_xref_rhea.csv" }