{ "bcoid": "GLY_000771", "title": "Yeast Protein Recommended Names (UniProtKB)", "description": "The Yeast Protein Recommended Names (UniProtKB) dataset contains UniProtKB recommended names for yeast ...", "filename": "yeast_protein_recnames.csv", "filetype": "csv", "categories": { "species": [ "Saccharomyces cerevisiae S288C" ], "molecule": [ "Protein" ], "tag": [ "Protein Recommended Names" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "P30619-1...", "Protein tran..." ], [ "P39972-1...", "Uncharacteri..." ] ], "headers": [ "uniprotkb_ca...", "recommended_..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "recommended_name_full" }, { "type": "string", "label": "recommended_name_short" }, { "type": "string", "label": "ec_name" } ], [ "P30619-1", "Protein transport protein SEC1", "", "" ], [ "P39972-1", "Uncharacterized protein YEL075C", "", "" ], [ "P39970-1", "ATF/CREB activator 1", "", "" ], [ "P39971-1", "Uncharacterized protein YEL076C", "", "" ], [ "P39976-1", "D-2-hydroxyglutarate--pyruvate transhydrogenase DLD3", "D-2HG--pyruvate transhydrogenase DLD3", "1.1.99.40" ], [ "P39977-1", "Uncharacterized protein YEL068C", "", "" ], [ "P39974-1", "Uncharacterized protein YEL073C", "", "" ], [ "P39975-1", "Sporulation protein RMD6", "", "" ], [ "P39978-1", "Uncharacterized protein YEL067C", "", "" ], [ "P39979-1", "D-amino-acid N-acetyltransferase HPA3", "DNT", "2.3.1.48" ], [ "P39979-1", "D-amino-acid N-acetyltransferase HPA3", "DNT", "2.3.1.36" ], [ "Q07959-1", "ADIPOR-like receptor IZH3", "", "" ], [ "P0CX69-1", "Transposon Ty1-MR2 Gag polyprotein", "", "" ], [ "P25379-1", "Catabolic L-serine/threonine dehydratase", "", "" ], [ "P25378-1", "Rheb-like protein RHB1", "", "" ], [ "P17121-1", "GTPase-activating protein SAC7", "", "" ], [ "P25374-1", "Cysteine desulfurase, mitochondrial", "", "2.8.1.7" ], [ "P17123-1", "Sporulation-specific protein 12", "", "" ], [ "P17122-1", "Sporulation-specific protein 16", "", "" ], [ "P25371-1", "Probable ATP-dependent permease", "", "" ], [ "P25370-1", "Good for full DBP5 activity protein 2", "", "" ], [ "P25373-1", "Glutaredoxin-1", "", "2.5.1.18" ], [ "P25373-1", "Glutaredoxin-1", "", "1.11.1.9" ], [ "P25372-1", "Thioredoxin-3, mitochondrial", "", "" ], [ "Q06568-1", "Nuclear distribution protein nudE homolog 1", "", "" ], [ "Q03049-1", "Putative uncharacterized oxidoreductase YDR541C", "", "1.1.1.-" ], [ "Q06567-1", "ABC1 family protein MCP2", "", "" ], [ "Q06563-1", "Protein SYM1", "", "" ], [ "Q00539-1", "Protein NAM8", "", "" ], [ "Q07748-1", "4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate synthase THI13", "HMP-P synthase", "2.-.-.-" ], [ "Q07748-1", "4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate synthase THI13", "Hydroxymethylpyrimidine phosphate synthase", "2.-.-.-" ], [ "Q07963-1", "E3 ubiquitin-protein ligase UBR2", "", "2.3.2.27" ], [ "Q07746-1", "Uncharacterized protein YDL242W", "", "" ], [ "Q07967-1", "Putative uncharacterized protein YLR030W", "", "" ], [ "Q00246-1", "GTP-binding protein RHO4", "", "3.6.5.2" ], [ "Q00245-1", "GTP-binding protein RHO3", "", "" ], [ "P0CX61-1", "Transposon Ty2-F Gag polyprotein", "TY2A", "" ], [ "P0CX61-1", "Transposon Ty2-F Gag polyprotein", "TYA", "" ], [ "P0CX61-1", "Transposon Ty2-F Gag polyprotein", "Transposon Ty2 protein A", "" ], [ "P40422-1", "DNA-directed RNA polymerases I, II, and III subunit RPABC4", "RNA polymerases I, II, and III subunit ABC4", "" ], [ "P0CX62-1", "Transposon Ty2-GR2 Gag polyprotein", "TY2A", "" ], [ "P0CX62-1", "Transposon Ty2-GR2 Gag polyprotein", "TYA", "" ], [ "P0CX62-1", "Transposon Ty2-GR2 Gag polyprotein", "Transposon Ty2 protein A", "" ], [ "P0CX64-1", "Transposon Ty2-GR2 Gag-Pol polyprotein", "", "" ], [ "P0CX67-1", "Transposon Ty1-GR3 Gag polyprotein", "", "" ], [ "P18494-1", "Nitrogen regulatory protein GLN3", "", "" ], [ "P18496-1", "Mitochondrial ATPase complex subunit ATP10", "", "" ], [ "Q03441-1", "Sporulation protein RMD1", "", "" ], [ "Q08748-1", "Uncharacterized protein YOR296W", "", "" ], [ "Q08749-1", "Mitochondrial import inner membrane translocase subunit TIM18", "", "" ], [ "Q08746-1", "Regulator of ribosome biosynthesis", "", "" ], [ "Q08747-1", "Upstream activation factor subunit UAF30", "", "" ], [ "Q08745-1", "Small ribosomal subunit protein eS10A", "", "" ], [ "Q08742-1", "Thiosulfate sulfurtransferase RDL2, mitochondrial", "", "2.8.1.1" ], [ "Q08743-1", "Vacuolar membrane protein YOR292C", "", "" ], [ "P32915-1", "Protein transport protein SEC61", "", "" ], [ "P32914-1", "Transcription elongation factor SPT4", "", "" ], [ "P32917-1", "Protein STE5", "", "" ], [ "P32916-1", "Signal recognition particle receptor subunit alpha homolog", "SR-alpha", "" ], [ "P32911-1", "Eukaryotic translation initiation factor eIF-1", "", "" ], [ "P32910-1", "DNA-directed RNA polymerase III subunit RPC6", "RNA polymerase III subunit C6", "" ], [ "P32913-1", "Vacuolar protein sorting-associated protein 17", "", "" ], [ "P32912-1", "Vacuolar morphogenesis protein 7", "", "" ], [ "Q04438-1", "Stationary phase protein 4", "", "" ], [ "Q04439-1", "Myosin-5", "", "" ], [ "Q04430-1", "Pantothenate kinase CAB1", "", "2.7.1.33" ], [ "Q04431-1", "Spindle pole body component KRE28", "", "" ], [ "Q04432-1", "Glutathione-independent glyoxalase HSP31", "", "4.2.1.130" ], [ "Q04433-1", "Facilitator of iron transport 1", "", "" ], [ "Q04436-1", "Uncharacterized protein YMR103C", "", "" ], [ "Q04437-1", "ATP-dependent DNA helicase II subunit 2", "", "3.6.4.12" ], [ "P00546-1", "Cyclin-dependent kinase 1", "CDK1", "2.7.11.22" ], [ "P04385-1", "Galactokinase", "", "2.7.1.6" ], [ "P04387-1", "Galactose/lactose metabolism regulatory protein GAL80", "", "" ], [ "P04386-1", "Regulatory protein GAL4", "", "" ], [ "Q08299-1", "Siderophore iron transporter ENB1", "", "" ], [ "Q08562-1", "ATP-dependent helicase ULS1", "", "3.6.4.-" ], [ "Q08560-1", "Putative uncharacterized protein YOR186W", "", "" ], [ "Q08561-1", "Ino eighty subunit 4", "", "" ], [ "P25377-1", "NADP-dependent alcohol dehydrogenase 7", "", "1.1.1.2" ], [ "P25376-1", "General amino acid permease AGP1", "", "" ], [ "P32474-1", "Protein disulfide-isomerase EUG1", "PDI", "5.3.4.1" ], [ "P09007-1", "Pre-rRNA-processing protein SRD1", "", "" ], [ "P04037-1", "Cytochrome c oxidase subunit 4, mitochondrial", "", "" ] ] }, "readme": "Name\n - Yeast Protein Recommended Names (UniProtKB)\n\nVersion\n - v-2.2.1\n\nCreated on\n - 2022-08-31T11:01:36.870249\n\nModified on\n - 2023-09-11T19:21:19\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], 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 Recommended Names (UniProtKB) dataset contains UniProtKB recommended names for yeast [taxid:559292] proteins. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\n\nDescription Domain\n Keywords\n - protein recommended name\n - protein name\n - UniProtKB\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB recommended names for protein accessions from the triplestore containing triples from nt file and extracts the recommended names into csv dataset file\n\nExecution Domain\n Scripts - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/extract-from-endpoint.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_recnames.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/yeast_protein_recnames.csv\n Name: yeast_protein_recnames.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/yeast_protein_recnames.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"6060\"\n Name: \"recommended_name_full\"\n Description: \"Recommended full name of the protein in the UniProtKB database\"\n Unique Values: \"6055\"\n Name: \"recommended_name_short\"\n Description: \"Recommended short name of the protein in UniProtKB database\"\n Unique Values: \"786\"\n Name: \"ec_name\"\n Description: \"Enzyme Commision name assigned to an enzyme by the Nomenclature Committee of the International Union of Biochemistry and Molecular Biology (IUBMB)\"\n Unique Values: \"808\"", "downloadurl": "/ln2data/releases/data/v-2.2.1/reviewed/yeast_protein_recnames.csv" }