{ "bcoid": "GLY_000243", "title": "Rat UniProtKB Xref InterPro", "description": "The Rat UniprotKB Xref InterPro contains rat [taxid:10116] UniProtKB canonical accessions cross-referenced ...", "filename": "rat_protein_xref_interpro.csv", "filetype": "csv", "categories": { "species": "Rattus Norvegicus", "molecule": "Protein", "tags": "Interpro cross-references", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q5RJK9-1...", "IPR011263..." ], [ "Q5RJK9-1...", "IPR036603..." ] ], "headers": [ "uniprotkb_ca...", "database_id..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "database_id" }, { "type": "string", "label": "database_label" } ], [ "Q5RJK9-1", "IPR011263", "DNA-dir_RNA_pol_RpoA/D/Rpb3" ], [ "Q5RJK9-1", "IPR036603", "RBP11-like" ], [ "Q5RJK9-1", "IPR001514", "DNA-dir_RNA_pol_30-40kDasu_CS" ], [ "Q5RJK9-1", "IPR011262", "DNA-dir_RNA_pol_insert" ], [ "Q5RJK9-1", "IPR033901", "RNAPI/II_AC40" ], [ "Q5RJK9-1", "IPR036643", "RNApol_insert_sf" ], [ "Q5RJK8-1", "IPR002110", "Ankyrin_rpt" ], [ "Q5RJK8-1", "IPR020683", "Ankyrin_rpt-contain_dom" ], [ "Q5RJK8-1", "IPR036770", "Ankyrin_rpt-contain_sf" ], [ "Q5RJK8-1", "IPR000582", "Acyl-CoA-binding_protein" ], [ "Q5RJK8-1", "IPR014352", "FERM/acyl-CoA-bd_prot_sf" ], [ "Q5RJK8-1", "IPR035984", "Acyl-CoA-binding_sf" ], [ "D3ZZY8-1", "IPR000276", "GPCR_Rhodpsn" ], [ "D3ZZY8-1", "IPR017452", "GPCR_Rhodpsn_7TM" ], [ "D3ZZY8-1", "IPR000725", "Olfact_rcpt" ], [ "D3ZG10-1", "IPR035646", "GRAP2_C_SH3" ], [ "D3ZG10-1", "IPR000980", "SH2" ], [ "D3ZG10-1", "IPR001452", "SH3_domain" ], [ "D3ZG10-1", "IPR036028", "SH3-like_dom_sf" ], [ "D3ZG10-1", "IPR036860", "SH2_dom_sf" ], [ "D3ZB44-1", "IPR013087", "Znf_C2H2_type" ], [ "D3ZB44-1", "IPR036236", "Znf_C2H2_sf" ], [ "D3ZB44-1", "IPR001909", "KRAB" ], [ "D3ZB44-1", "IPR036051", "KRAB_dom_sf" ], [ "D3ZZY2-1", "IPR006709", "SSU_processome_Utp14" ], [ "Q5RJK0-1", "IPR009790", "DUF1356_TMEM106" ], [ "Q5RJK3-1", "IPR016009", "tRNA_MeTrfase_TRMD/TRM10" ], [ "Q5RJK3-1", "IPR028564", "MT_TRM10-typ" ], [ "Q5RJK3-1", "IPR007356", "tRNA_m1G_MeTrfase_euk" ], [ "Q5RJK3-1", "IPR038459", "MT_TRM10-typ_sf" ], [ "P30349-1", "IPR016024", "ARM-type_fold" ], [ "P30349-1", "IPR001930", "Peptidase_M1" ], [ "P30349-1", "IPR014782", "Peptidase_M1_dom" ], [ "P30349-1", "IPR015211", "Peptidase_M1_C" ], [ "P30349-1", "IPR034015", "M1_LTA4H" ], [ "P30349-1", "IPR012777", "LTA4H" ], [ "P30349-1", "IPR027268", "Peptidase_M4/M1_CTD_sf" ], [ "P30349-1", "IPR038502", "M1_LTA-4_hydro/amino_C_sf" ], [ "P30349-1", "IPR042097", "Aminopeptidase_N-like_N" ], [ "Q5RJK5-1", "IPR038033", "CBX3" ], [ "Q5RJK5-1", "IPR000953", "Chromo/chromo_shadow_dom" ], [ "Q5RJK5-1", "IPR016197", "Chromo-like_dom_sf" ], [ "Q5RJK5-1", "IPR008251", "Chromo_shadow_dom" ], [ "Q5RJK5-1", "IPR017984", "Chromo_dom_subgr" ], [ "Q5RJK5-1", "IPR023779", "Chromodomain_CS" ], [ "Q5RJK5-1", "IPR023780", "Chromo_domain" ], [ "D3ZB48-1", "IPR001715", "CH-domain" ], [ "D3ZB48-1", "IPR036872", "CH_dom_sf" ], [ "D3ZB48-1", "IPR008636", "Hook-like_fam" ], [ "Q5RJK6-1", "IPR000760", "Inositol_monophosphatase-like" ], [ "Q5RJK6-1", "IPR020550", "Inositol_monophosphatase_CS" ], [ "Q5RJK6-1", "IPR020583", "Inositol_monoP_metal-BS" ], [ "A0A096MKC6-1", "IPR000566", "Lipocln_cytosolic_FA-bd_dom" ], [ "A0A096MKC6-1", "IPR012674", "Calycin" ], [ "A0A096MKC6-1", "IPR002345", "Lipocalin" ], [ "A0A096MKC6-1", "IPR022272", "Lipocalin_CS" ], [ "A0A096MKC6-1", "IPR002971", "Maj_urinary" ], [ "Q6MG55-1", "IPR000073", "AB_hydrolase_1" ], [ "Q6MG55-1", "IPR029058", "AB_hydrolase" ], [ "Q6MG55-1", "IPR026604", "ABHD16A" ], [ "Q6MG56-1", "IPR003599", "Ig_sub" ], [ "Q6MG56-1", "IPR007110", "Ig-like_dom" ], [ "Q6MG56-1", "IPR013783", "Ig-like_fold" ], [ "Q6MG56-1", "IPR036179", "Ig-like_dom_sf" ], [ "Q6MG56-1", "IPR013106", "Ig_V-set" ], [ "Q6MG56-1", "IPR026524", "LY6G6d/LY6G6f" ], [ "A0A0G2K0H3-1", "IPR000742", "EGF-like_dom" ], [ "A0A0G2K0H3-1", "IPR011042", "6-blade_b-propeller_TolB-like" ], [ "A0A0G2K0H3-1", "IPR002172", "LDrepeatLR_classA_rpt" ], [ "A0A0G2K0H3-1", "IPR023415", "LDLR_class-A_CS" ], [ "A0A0G2K0H3-1", "IPR036055", "LDL_receptor-like_sf" ], [ "A0A0G2K0H3-1", "IPR000033", "LDLR_classB_rpt" ], [ "A0A0G2K0H3-1", "IPR017049", "LRP5/6" ], [ "Q5XIH0-1", "IPR015257", "Maf1" ], [ "Q5XIH0-1", "IPR038564", "Maf1_sf" ], [ "Q6MG51-1", "IPR029073", "DUF4661" ], [ "F1M2W7-1", "IPR001283", "CRISP-related" ], [ "F1M2W7-1", "IPR014044", "CAP_domain" ], [ "F1M2W7-1", "IPR035940", "CAP_sf" ], [ "F1M2W7-1", "IPR018244", "Allrgn_V5/Tpx1_CS" ], [ "Q6MG53-1", "IPR038773", "LY6G5B" ], [ "D4AAV0-1", "IPR019471", "Interferon_reg_factor-3" ], [ "D4AAV0-1", "IPR008984", "SMAD_FHA_dom_sf" ], [ "D4AAV0-1", "IPR036388", "WH-like_DNA-bd_sf" ] ] }, "readme": "Name\n - Rat UniProtKB Xref InterPro\n\nVersion\n - 1.5.12\n\nCreated on\n - 2019-09-06T14:06:38.970158\n\nModified on\n - 2019-11-28T02:08:29.690112\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]\n\nAuthors\n - Maria Martin [martin@ebi.ac.uk], Preethi Vasudev [pvasudev@ebi.ac.uk]\n\nChecksum\n - \n\nUsability Domain\n - The Rat UniprotKB Xref InterPro contains rat [taxid:10116] UniProtKB canonical accessions cross-referenced to InterPro 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 - InterPro is a database of protein families, domains and functional sites in which identifiable features found in known proteins can be applied to new protein sequences in order to functionally characterise them.\n\nDescription Domain\n Keywords\n - protein family\n - protein domain\n - protein functional site\n - InterPro\n - cross-reference\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB accessions that are cross-referenced to InterPro database accessions/identifiers from the triplestore containing triples from nt file and maps to the UniProtKB canonical accessions and extracts the data as a csv dataset\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: uniprot-proteome-rattus-norvegicus.nt\n URI: https://data.glygen.org/ln2data/releases/data/v-1.5.12/source/uniprot-proteome-rattus-norvegicus.nt\n Name: rat_protein_masterlist.csv\n URI: https://data.glygen.org/ln2data/releases/data/v-1.5.12/reviewed/rat_protein_masterlist.csv\n Output Subdomain\n Name: rat_protein_xref_interpro.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.5.12/reviewed/rat_protein_xref_interpro.csv\n Name: rat_protein_xref_interpro.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.5.12/reviewed/rat_protein_xref_interpro.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"Accession assigned to the protein isoform chosen to be the canonical sequence to which all positional annotation refers in UniProtKB database\"\n Unique Values: \"20861\"\n Name: \"database_label\"\n Description: \"Label or name assigned to the corresponding identifier in the source database\"\n Unique Values: \"16103\"\n Name: \"database_id\"\n Description: \"Identifier in the database\"\n Unique Values: \"16103\"", "downloadurl": "/ln2data/releases/data/v-1.5.12/reviewed/rat_protein_xref_interpro.csv" }