{ "bcoid": "GLY_000874", "title": "Dicty UniProtKB Xref PDB", "description": "The Dicty UniProtKB Xref PDB contains dicty [taxid:44689] UniProtKB canonical accessions cross-referenced ...", "filename": "dicty_protein_xref_pdb.csv", "filetype": "csv", "categories": { "species": [ "Dictyostelium discoideum" ], "molecule": [ "Protein" ], "tag": [ "PDB cross-references" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "P22887-1...", "protein_xref..." ], [ "P22887-1...", "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" } ], [ "P22887-1", "protein_xref_pdb", "1B4S", "" ], [ "P22887-1", "protein_xref_pdb", "1B99", "" ], [ "P22887-1", "protein_xref_pdb", "1BUX", "" ], [ "P22887-1", "protein_xref_pdb", "1F3F", "" ], [ "P22887-1", "protein_xref_pdb", "1F6T", "" ], [ "P22887-1", "protein_xref_pdb", "1HHQ", "" ], [ "P22887-1", "protein_xref_pdb", "1HIY", "" ], [ "P22887-1", "protein_xref_pdb", "1HLW", "" ], [ "P22887-1", "protein_xref_pdb", "1KDN", "" ], [ "P22887-1", "protein_xref_pdb", "1LEO", "" ], [ "P22887-1", "protein_xref_pdb", "1LWX", "" ], [ "P22887-1", "protein_xref_pdb", "1MN7", "" ], [ "P22887-1", "protein_xref_pdb", "1MN9", "" ], [ "P22887-1", "protein_xref_pdb", "1NCL", "" ], [ "P22887-1", "protein_xref_pdb", "1NDC", "" ], [ "P22887-1", "protein_xref_pdb", "1NDK", "" ], [ "P22887-1", "protein_xref_pdb", "1NDP", "" ], [ "P22887-1", "protein_xref_pdb", "1NPK", "" ], [ "P22887-1", "protein_xref_pdb", "1NSP", "" ], [ "P22887-1", "protein_xref_pdb", "1PAE", "" ], [ "P22887-1", "protein_xref_pdb", "1S5Z", "" ], [ "P22887-1", "protein_xref_pdb", "2BEF", "" ], [ "P22887-1", "protein_xref_pdb", "3FKB", "" ], [ "P22887-1", "protein_xref_pdb", "4C6A", "" ], [ "P22887-1", "protein_xref_pdb", "4CP5", "" ], [ "P07830-1", "protein_xref_pdb", "1C0F", "" ], [ "P07830-1", "protein_xref_pdb", "1C0G", "" ], [ "P07830-1", "protein_xref_pdb", "1DEJ", "" ], [ "P07830-1", "protein_xref_pdb", "1NLV", "" ], [ "P07830-1", "protein_xref_pdb", "1NM1", "" ], [ "P07830-1", "protein_xref_pdb", "1NMD", "" ], [ "P07830-1", "protein_xref_pdb", "3A5L", "" ], [ "P07830-1", "protein_xref_pdb", "3A5M", "" ], [ "P07830-1", "protein_xref_pdb", "3A5N", "" ], [ "P07830-1", "protein_xref_pdb", "3A5O", "" ], [ "P07830-1", "protein_xref_pdb", "3CI5", "" ], [ "P07830-1", "protein_xref_pdb", "3CIP", "" ], [ "P07830-1", "protein_xref_pdb", "3CHW", "" ], [ "P42527-1", "protein_xref_pdb", "3LKM", "" ], [ "P42527-1", "protein_xref_pdb", "3LLA", "" ], [ "P42527-1", "protein_xref_pdb", "3LMH", "" ], [ "P42527-1", "protein_xref_pdb", "3LMI", "" ], [ "P42527-1", "protein_xref_pdb", "3PDT", "" ], [ "P42527-1", "protein_xref_pdb", "4ZME", "" ], [ "P42527-1", "protein_xref_pdb", "4ZMF", "" ], [ "P42527-1", "protein_xref_pdb", "4ZS4", "" ], [ "P42527-1", "protein_xref_pdb", "5DYJ", "" ], [ "P42527-1", "protein_xref_pdb", "5E4H", "" ], [ "P42527-1", "protein_xref_pdb", "5E9E", "" ], [ "O96759-1", "protein_xref_pdb", "2UUU", "" ], [ "O96759-1", "protein_xref_pdb", "2UUV", "" ], [ "P13466-1", "protein_xref_pdb", "1KSR", "" ], [ "P13466-1", "protein_xref_pdb", "1QFH", "" ], [ "P13466-1", "protein_xref_pdb", "1WLH", "" ], [ "P13466-1", "protein_xref_pdb", "2N62", "" ], [ "P13466-1", "protein_xref_pdb", "6G4A", "" ], [ "P13466-1", "protein_xref_pdb", "7Z20", "" ], [ "P13466-1", "protein_xref_pdb", "7ZP8", "" ], [ "O00910-1", "protein_xref_pdb", "1UUR", "" ], [ "O00910-1", "protein_xref_pdb", "1UUS", "" ], [ "P13231-1", "protein_xref_pdb", "1HCD", "" ], [ "P13231-1", "protein_xref_pdb", "1HCE", "" ], [ "Q54LT0-1", "protein_xref_pdb", "5Z2H", "" ], [ "Q54LT0-1", "protein_xref_pdb", "5Z2I", "" ], [ "Q94464-1", "protein_xref_pdb", "1JWY", "" ], [ "Q94464-1", "protein_xref_pdb", "1JX2", "" ], [ "P54657-1", "protein_xref_pdb", "1YHP", "" ], [ "P54657-1", "protein_xref_pdb", "2B1O", "" ], [ "P54654-1", "protein_xref_pdb", "1S0P", "" ], [ "P54654-1", "protein_xref_pdb", "1TJF", "" ], [ "P54651-1", "protein_xref_pdb", "4XC0", "" ], [ "P54651-1", "protein_xref_pdb", "4XCJ", "" ], [ "P54651-1", "protein_xref_pdb", "4XCL", "" ], [ "P54651-1", "protein_xref_pdb", "4XD8", "" ], [ "P54651-1", "protein_xref_pdb", "4XDM", "" ], [ "P54651-1", "protein_xref_pdb", "4XE2", "" ], [ "P54651-1", "protein_xref_pdb", "4XKA", "" ], [ "P54651-1", "protein_xref_pdb", "4XKK", "" ], [ "P54651-1", "protein_xref_pdb", "4XKO", "" ], [ "Q55BQ2-1", "protein_xref_pdb", "5Z1N", "" ], [ "Q55BQ2-1", "protein_xref_pdb", "5Z39", "" ], [ "Q6TMK4-1", "protein_xref_pdb", "6ERC", "" ], [ "Q54X65-1", "protein_xref_pdb", "3PP5", "" ], [ "Q54J69-1", "protein_xref_pdb", "5AN9", "" ] ] }, "readme": "Name\n - Dicty UniProtKB Xref PDB\n\nVersion\n - v-2.4.1\n\nCreated on\n - \n\nModified on\n - 2024-01-09T05:42:17\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Robel Kahsay [rykahsay@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 Dicty UniProtKB Xref PDB contains dicty [taxid:44689] UniProtKB canonical accessions cross-referenced to PDB 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 The Protein Data Bank is a database for the three-dimensional structural data of large biological molecules, such as proteins and nucleic acids.\n\nDescription Domain\n Keywords\n - protein 3D structure\n - RCSB PDB\n - cross-reference\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB canonical accessions that are cross-referenced to RCSB PDB 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-dictyostelium-discoideum.nt\n URI: https:/data.glygen.org/ln2downloads/ebi/2024_02_13/uniprot-proteome-dictyostelium-discoideum.nt\n Output Subdomain\n Name: dicty_protein_xref_pdb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/dicty_protein_xref_pdb.csv\n Name: dicty_protein_xref_pdb.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/dicty_protein_xref_pdb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"60\"\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: \"208\"\n Name: \"xref_label\"\n Description: \"Label/Name associated with x-ref\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-2.4.1/reviewed/dicty_protein_xref_pdb.csv" }