{ "bcoid": "GLY_000122", "title": "Mouse UniProtKB Xref Pfam", "description": "The Mouse UniProtKB Xref Pfam contains mouse [taxid:10090] UniProtKB canonical accessions cross-referenced ...", "filename": "mouse_protein_xref_pfam.csv", "filetype": "csv", "categories": { "species": [ "Mus musculus" ], "molecule": [ "Protein" ], "tag": [ "Pfam cross-references" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "Q8BH24-1...", "protein_xref..." ], [ "Q8BH27-1...", "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" } ], [ "Q8BH24-1", "protein_xref_pfam", "PF02990", "EMP70" ], [ "Q8BH27-1", "protein_xref_pfam", "PF00053", "Laminin_EGF" ], [ "Q8BH26-1", "protein_xref_pfam", "PF15190", "TMEM251" ], [ "E9Q287-1", "protein_xref_pfam", "PF01562", "Pep_M12B_propep" ], [ "Q922G0-1", "protein_xref_pfam", "PF00153", "Mito_carr" ], [ "Q80WT5-1", "protein_xref_pfam", "PF15045", "Clathrin_bdg" ], [ "Q80T32-1", "protein_xref_pfam", "PF00002", "7tm_2" ], [ "Q80T32-1", "protein_xref_pfam", "PF01825", "GPS" ], [ "Q80T32-1", "protein_xref_pfam", "PF13385", "Laminin_G_3" ], [ "B2RXV4-1", "protein_xref_pfam", "PF07690", "MFS_1" ], [ "P62492-1", "protein_xref_pfam", "PF00071", "Ras" ], [ "E9Q3P4-1", "protein_xref_pfam", "PF10473", "CENP-F_leu_zip" ], [ "E9Q3P4-1", "protein_xref_pfam", "PF10481", "CENP-F_N" ], [ "E9Q3P4-1", "protein_xref_pfam", "PF10490", "CENP-F_C_Rb_bdg" ], [ "P63166-1", "protein_xref_pfam", "PF00240", "ubiquitin" ], [ "D3YX67-1", "protein_xref_pfam", "PF15663", "zf-CCCH_3" ], [ "D3YX67-1", "protein_xref_pfam", "PF17732", "DUF5571" ], [ "A0A087WRQ3-1", "protein_xref_pfam", "PF07686", "V-set" ], [ "A5H0M4-1", "protein_xref_pfam", "PF00023", "Ank" ], [ "A5H0M4-1", "protein_xref_pfam", "PF12796", "Ank_2" ], [ "P03899-1", "protein_xref_pfam", "PF00507", "Oxidored_q4" ], [ "Q9CWR0-1", "protein_xref_pfam", "PF00621", "RhoGEF" ], [ "Q91YE9-1", "protein_xref_pfam", "PF06189", "5-nucleotidase" ], [ "Q02853-1", "protein_xref_pfam", "PF00413", "Peptidase_M10" ], [ "P03893-1", "protein_xref_pfam", "PF06444", "NADH_dehy_S2_C" ], [ "P03893-1", "protein_xref_pfam", "PF00361", "Proton_antipo_M" ], [ "Q6DYE8-1", "protein_xref_pfam", "PF01663", "Phosphodiest" ], [ "Q9R092-1", "protein_xref_pfam", "PF00106", "adh_short" ], [ "Q9QYH9-1", "protein_xref_pfam", "PF00229", "TNF" ], [ "P52479-1", "protein_xref_pfam", "PF07145", "PAM2" ], [ "P52479-1", "protein_xref_pfam", "PF00443", "UCH" ], [ "P02762-1", "protein_xref_pfam", "PF00061", "Lipocalin" ], [ "Q9QYH6-1", "protein_xref_pfam", "PF01454", "MAGE" ], [ "Q08AU7-1", "protein_xref_pfam", "PF01284", "MARVEL" ], [ "Q5EBH1-1", "protein_xref_pfam", "PF00788", "RA" ], [ "Q5EBH1-1", "protein_xref_pfam", "PF00130", "C1_1" ], [ "Q5EBH1-1", "protein_xref_pfam", "PF16517", "Nore1-SARAH" ], [ "O35309-1", "protein_xref_pfam", "PF07334", "IFP_35_N" ], [ "Q80YU0-1", "protein_xref_pfam", "PF00561", "Abhydrolase_1" ], [ "Q8BTY1-1", "protein_xref_pfam", "PF00155", "Aminotran_1_2" ], [ "Q5SRT8-1", "protein_xref_pfam", "PF00134", "Cyclin_N" ], [ "Q5SRT8-1", "protein_xref_pfam", "PF02984", "Cyclin_C" ], [ "P70414-1", "protein_xref_pfam", "PF03160", "Calx-beta" ], [ "P70414-1", "protein_xref_pfam", "PF16494", "Na_Ca_ex_C" ], [ "P70414-1", "protein_xref_pfam", "PF01699", "Na_Ca_ex" ], [ "P70412-1", "protein_xref_pfam", "PF00431", "CUB" ], [ "P70412-1", "protein_xref_pfam", "PF00100", "Zona_pellucida" ], [ "Q3TLD5-1", "protein_xref_pfam", "PF02996", "Prefoldin" ], [ "A0A0U1RPG8-1", "protein_xref_pfam", "PF02214", "BTB_2" ], [ "Q9QYC7-1", "protein_xref_pfam", "PF05090", "VKG_Carbox" ], [ "P10852-1", "protein_xref_pfam", "PF16028", "SLC3A2_N" ], [ "B2RRA8-1", "protein_xref_pfam", "PF01352", "KRAB" ], [ "P70419-1", "protein_xref_pfam", "PF00535", "Glycos_transf_2" ], [ "P70419-1", "protein_xref_pfam", "PF00652", "Ricin_B_lectin" ], [ "Q9EP78-1", "protein_xref_pfam", "PF00685", "Sulfotransfer_1" ], [ "Q9EP79-1", "protein_xref_pfam", "PF03402", "V1R" ], [ "Q3URK3-1", "protein_xref_pfam", "PF02008", "zf-CXXC" ], [ "Q3URK3-1", "protein_xref_pfam", "PF12851", "Tet_JBP" ], [ "Q9EP72-1", "protein_xref_pfam", "PF09430", "EMC7_beta-sandw" ], [ "Q9EP73-1", "protein_xref_pfam", "PF07686", "V-set" ], [ "Q9EP73-1", "protein_xref_pfam", "PF08205", "C2-set_2" ], [ "Q9EP71-1", "protein_xref_pfam", "PF00023", "Ank" ], [ "Q9EP71-1", "protein_xref_pfam", "PF12796", "Ank_2" ], [ "Q9EP75-1", "protein_xref_pfam", "PF00067", "p450" ], [ "Q8VF62-1", "protein_xref_pfam", "PF13853", "7tm_4" ], [ "D3YWQ0-1", "protein_xref_pfam", "PF00609", "DAGK_acc" ], [ "D3YWQ0-1", "protein_xref_pfam", "PF00781", "DAGK_cat" ], [ "D3YWQ0-1", "protein_xref_pfam", "PF00130", "C1_1" ], [ "P30282-1", "protein_xref_pfam", "PF02984", "Cyclin_C" ], [ "P97411-1", "protein_xref_pfam", "PF06456", "Arfaptin" ], [ "P97411-1", "protein_xref_pfam", "PF04629", "ICA69" ], [ "S4R213-1", "protein_xref_pfam", "PF00144", "Beta-lactamase" ], [ "Q91VV4-1", "protein_xref_pfam", "PF02141", "DENN" ], [ "Q91VV4-1", "protein_xref_pfam", "PF03455", "dDENN" ], [ "Q91VV4-1", "protein_xref_pfam", "PF03456", "uDENN" ], [ "P53702-1", "protein_xref_pfam", "PF01265", "Cyto_heme_lyase" ], [ "Q9Z2V6-1", "protein_xref_pfam", "PF00850", "Hist_deacetyl" ], [ "Q9Z2V6-1", "protein_xref_pfam", "PF12203", "HDAC4_Gln" ], [ "O08911-1", "protein_xref_pfam", "PF00069", "Pkinase" ], [ "Q9CWR2-1", "protein_xref_pfam", "PF01753", "zf-MYND" ], [ "Q80WC9-1", "protein_xref_pfam", "PF00501", "AMP-binding" ], [ "Q80WC9-1", "protein_xref_pfam", "PF00550", "PP-binding" ], [ "Q80WC9-1", "protein_xref_pfam", "PF13360", "PQQ_2" ], [ "Q80WC9-1", "protein_xref_pfam", "PF13570", "PQQ_3" ] ] }, "readme": "Name\n - Mouse UniProtKB Xref Pfam\n\nVersion\n - v-2.4.1\n\nCreated on\n - 2019-03-15T16:01:50.980059\n\nModified on\n - 2022-09-26T08:56:48.529071\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@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 - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n - \n\nUsability Domain\n - The Mouse UniProtKB Xref Pfam contains mouse [taxid:10090] UniProtKB canonical accessions cross-referenced to Pfam 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 - Pfam is a database of protein families that includes their annotations and multiple sequence alignments generated using hidden Markov models. \n\nDescription Domain\n Keywords\n - protein family\n - Pfam\n - cross-reference\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB canonical accessions that are cross-referenced to Pfam 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-mus-musculus.nt\n URI: https:/data.glygen.org/ln2downloads/ebi/2024_02_13/uniprot-proteome-mus-musculus.nt\n Output Subdomain\n Name: mouse_protein_xref_pfam.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/mouse_protein_xref_pfam.csv\n Name: mouse_protein_xref_pfam.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/mouse_protein_xref_pfam.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"20327\"\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: \"6962\"\n Name: \"xref_label\"\n Description: \"Label/Name associated with x-ref\"\n Unique Values: \"6962\"", "downloadurl": "/ln2data/releases/data/v-2.4.1/reviewed/mouse_protein_xref_pfam.csv" }