{ "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...", "protein_xref..." ], [ "Q5RJK9-1...", "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" } ], [ "Q5RJK9-1", "protein_xref_interpro", "IPR011263", "DNA-dir_RNA_pol_RpoA/D/Rpb3" ], [ "Q5RJK9-1", "protein_xref_interpro", "IPR036603", "RBP11-like" ], [ "Q5RJK9-1", "protein_xref_interpro", "IPR001514", "DNA-dir_RNA_pol_30-40kDasu_CS" ], [ "Q5RJK9-1", "protein_xref_interpro", "IPR011262", "DNA-dir_RNA_pol_insert" ], [ "Q5RJK9-1", "protein_xref_interpro", "IPR033901", "RNAPI/II_AC40" ], [ "Q5RJK9-1", "protein_xref_interpro", "IPR036643", "RNApol_insert_sf" ], [ "Q5RJK8-1", "protein_xref_interpro", "IPR002110", "Ankyrin_rpt" ], [ "Q5RJK8-1", "protein_xref_interpro", "IPR020683", "Ankyrin_rpt-contain_dom" ], [ "Q5RJK8-1", "protein_xref_interpro", "IPR036770", "Ankyrin_rpt-contain_sf" ], [ "Q5RJK8-1", "protein_xref_interpro", "IPR000582", "Acyl-CoA-binding_protein" ], [ "Q5RJK8-1", "protein_xref_interpro", "IPR014352", "FERM/acyl-CoA-bd_prot_sf" ], [ "Q5RJK8-1", "protein_xref_interpro", "IPR035984", "Acyl-CoA-binding_sf" ], [ "D3ZZY8-1", "protein_xref_interpro", "IPR000276", "GPCR_Rhodpsn" ], [ "D3ZZY8-1", "protein_xref_interpro", "IPR017452", "GPCR_Rhodpsn_7TM" ], [ "D3ZZY8-1", "protein_xref_interpro", "IPR000725", "Olfact_rcpt" ], [ "D3ZG10-1", "protein_xref_interpro", "IPR035646", "GRAP2_C_SH3" ], [ "D3ZG10-1", "protein_xref_interpro", "IPR000980", "SH2" ], [ "D3ZG10-1", "protein_xref_interpro", "IPR001452", "SH3_domain" ], [ "D3ZG10-1", "protein_xref_interpro", "IPR036028", "SH3-like_dom_sf" ], [ "D3ZG10-1", "protein_xref_interpro", "IPR036860", "SH2_dom_sf" ], [ "D3ZG10-1", "protein_xref_interpro", "IPR043539", "Grb2-like" ], [ "D3ZB44-1", "protein_xref_interpro", "IPR013087", "Znf_C2H2_type" ], [ "D3ZB44-1", "protein_xref_interpro", "IPR036236", "Znf_C2H2_sf" ], [ "D3ZB44-1", "protein_xref_interpro", "IPR001909", "KRAB" ], [ "D3ZB44-1", "protein_xref_interpro", "IPR036051", "KRAB_dom_sf" ], [ "D3ZZY2-1", "protein_xref_interpro", "IPR006709", "SSU_processome_Utp14" ], [ "Q5RJK0-1", "protein_xref_interpro", "IPR009790", "DUF1356_TMEM106" ], [ "Q5RJK3-1", "protein_xref_interpro", "IPR016009", "tRNA_MeTrfase_TRMD/TRM10" ], [ "Q5RJK3-1", "protein_xref_interpro", "IPR028564", "MT_TRM10-typ" ], [ "Q5RJK3-1", "protein_xref_interpro", "IPR007356", "tRNA_m1G_MeTrfase_euk" ], [ "Q5RJK3-1", "protein_xref_interpro", "IPR038459", "MT_TRM10-typ_sf" ], [ "P30349-1", "protein_xref_interpro", "IPR016024", "ARM-type_fold" ], [ "P30349-1", "protein_xref_interpro", "IPR001930", "Peptidase_M1" ], [ "P30349-1", "protein_xref_interpro", "IPR014782", "Peptidase_M1_dom" ], [ "P30349-1", "protein_xref_interpro", "IPR015211", "Peptidase_M1_C" ], [ "P30349-1", "protein_xref_interpro", "IPR034015", "M1_LTA4H" ], [ "P30349-1", "protein_xref_interpro", "IPR012777", "LTA4H" ], [ "P30349-1", "protein_xref_interpro", "IPR027268", "Peptidase_M4/M1_CTD_sf" ], [ "P30349-1", "protein_xref_interpro", "IPR038502", "M1_LTA-4_hydro/amino_C_sf" ], [ "P30349-1", "protein_xref_interpro", "IPR042097", "Aminopeptidase_N-like_N" ], [ "Q5RJK5-1", "protein_xref_interpro", "IPR038033", "CBX3" ], [ "Q5RJK5-1", "protein_xref_interpro", "IPR000953", "Chromo/chromo_shadow_dom" ], [ "Q5RJK5-1", "protein_xref_interpro", "IPR016197", "Chromo-like_dom_sf" ], [ "Q5RJK5-1", "protein_xref_interpro", "IPR008251", "Chromo_shadow_dom" ], [ "Q5RJK5-1", "protein_xref_interpro", "IPR017984", "Chromo_dom_subgr" ], [ "Q5RJK5-1", "protein_xref_interpro", "IPR023779", "Chromodomain_CS" ], [ "Q5RJK5-1", "protein_xref_interpro", "IPR023780", "Chromo_domain" ], [ "D3ZB48-1", "protein_xref_interpro", "IPR001715", "CH-domain" ], [ "D3ZB48-1", "protein_xref_interpro", "IPR036872", "CH_dom_sf" ], [ "D3ZB48-1", "protein_xref_interpro", "IPR008636", "Hook_C" ], [ "D3ZB48-1", "protein_xref_interpro", "IPR043936", "HOOK_N" ], [ "Q5RJK6-1", "protein_xref_interpro", "IPR000760", "Inositol_monophosphatase-like" ], [ "Q5RJK6-1", "protein_xref_interpro", "IPR020550", "Inositol_monophosphatase_CS" ], [ "Q5RJK6-1", "protein_xref_interpro", "IPR020583", "Inositol_monoP_metal-BS" ], [ "A0A096MKC6-1", "protein_xref_interpro", "IPR000566", "Lipocln_cytosolic_FA-bd_dom" ], [ "A0A096MKC6-1", "protein_xref_interpro", "IPR012674", "Calycin" ], [ "A0A096MKC6-1", "protein_xref_interpro", "IPR002345", "Lipocalin" ], [ "A0A096MKC6-1", "protein_xref_interpro", "IPR022272", "Lipocalin_CS" ], [ "A0A096MKC6-1", "protein_xref_interpro", "IPR002971", "Maj_urinary" ], [ "Q6MG55-1", "protein_xref_interpro", "IPR000073", "AB_hydrolase_1" ], [ "Q6MG55-1", "protein_xref_interpro", "IPR029058", "AB_hydrolase" ], [ "Q6MG55-1", "protein_xref_interpro", "IPR026604", "ABHD16A" ], [ "Q6MG56-1", "protein_xref_interpro", "IPR003599", "Ig_sub" ], [ "Q6MG56-1", "protein_xref_interpro", "IPR007110", "Ig-like_dom" ], [ "Q6MG56-1", "protein_xref_interpro", "IPR013783", "Ig-like_fold" ], [ "Q6MG56-1", "protein_xref_interpro", "IPR036179", "Ig-like_dom_sf" ], [ "Q6MG56-1", "protein_xref_interpro", "IPR013106", "Ig_V-set" ], [ "Q6MG56-1", "protein_xref_interpro", "IPR026524", "LY6G6d/LY6G6f" ], [ "A0A0G2K0H3-1", "protein_xref_interpro", "IPR000742", "EGF-like_dom" ], [ "A0A0G2K0H3-1", "protein_xref_interpro", "IPR011042", "6-blade_b-propeller_TolB-like" ], [ "A0A0G2K0H3-1", "protein_xref_interpro", "IPR002172", "LDrepeatLR_classA_rpt" ], [ "A0A0G2K0H3-1", "protein_xref_interpro", "IPR023415", "LDLR_class-A_CS" ], [ "A0A0G2K0H3-1", "protein_xref_interpro", "IPR036055", "LDL_receptor-like_sf" ], [ "A0A0G2K0H3-1", "protein_xref_interpro", "IPR000033", "LDLR_classB_rpt" ], [ "A0A0G2K0H3-1", "protein_xref_interpro", "IPR017049", "LRP5/6" ], [ "Q5XIH0-1", "protein_xref_interpro", "IPR015257", "Maf1" ], [ "Q5XIH0-1", "protein_xref_interpro", "IPR038564", "Maf1_sf" ], [ "Q6MG51-1", "protein_xref_interpro", "IPR029073", "DUF4661" ], [ "F1M2W7-1", "protein_xref_interpro", "IPR001283", "CRISP-related" ], [ "F1M2W7-1", "protein_xref_interpro", "IPR014044", "CAP_domain" ], [ "F1M2W7-1", "protein_xref_interpro", "IPR035940", "CAP_sf" ], [ "F1M2W7-1", "protein_xref_interpro", "IPR018244", "Allrgn_V5/Tpx1_CS" ], [ "Q6MG53-1", "protein_xref_interpro", "IPR038773", "LY6G5B" ], [ "D4AAV0-1", "protein_xref_interpro", "IPR019471", "Interferon_reg_factor-3" ] ] }, "readme": "Name\n - Rat UniProtKB Xref InterPro\n\nVersion\n - 1.8.25\n\nCreated on\n - 2019-09-06T14:06:38.970158\n\nModified on\n - 2020-04-10T11:57:30.660847\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-1.8.25/source/uniprot-proteome-rattus-norvegicus.nt\n Name: rat_protein_masterlist.csv\n URI: https://data.glygen.org/ln2data/releases/data/v-1.8.25/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-1.8.25/reviewed/rat_protein_xref_interpro.csv\n Name: rat_protein_xref_interpro.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.8.25/reviewed/rat_protein_xref_interpro.stat.csv\n\nFields\n Name: \"src_xref_key\"\n Description: \"Source Xref key\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"119\"\n Name: \"title\"\n Description: \"Title of the published article in the journal\"\n Unique Values: \"119\"\n Name: \"src_xref_id\"\n Description: \"Source X-ref ID\"\n Unique Values: \"120\"\n Name: \"journal_name\"\n Description: \"The name of the journal in which the article is published\"\n Unique Values: \"49\"\n Name: \"authors\"\n Description: \"NA\"\n Unique Values: \"118\"\n Name: \"publication_date\"\n Description: \"Contains the full date on which the issue of the journal was published. Sourced from MEDLINE/PubMed data element(fields) description.\"\n Unique Values: \"117\"\n Name: \"glytoucan_ac\"\n Description: \"Unique accession assigned to the registered glycan structure in GlyTouCan database\"\n Unique Values: \"115\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"", "downloadurl": "/ln2data/releases/data/v-1.8.25/reviewed/rat_protein_xref_interpro.csv" }