{ "bcoid": "GLY_000098", "title": "Mouse UniProtKB Xref CDD", "description": "The Mouse UniProtKB Xref CDD contains mouse [taxid:10090] UniProtKB canonical accessions cross-referenced ...", "filename": "mouse_protein_xref_cdd.csv", "filetype": "csv", "categories": { "species": "Mus musculus", "molecule": "Protein", "tags": "Cdd cross-references", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q9CXG9-1...", "cd15581..." ], [ "Q07968-1...", "cd00033..." ] ], "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" } ], [ "Q9CXG9-1", "cd15581", "PHD2_PHF19" ], [ "Q07968-1", "cd00033", "CCP" ], [ "Q9CXG3-1", "cd01921", "cyclophilin_RRM" ], [ "P01942-1", "cd08927", "Hb-alpha_like" ], [ "O35153-1", "cd15853", "SNARE_Bet1" ], [ "Q9QYH9-1", "cd00184", "TNF" ], [ "Q5EBH1-1", "cd00029", "C1" ], [ "Q61409-1", "cd00077", "HDc" ], [ "Q61406-1", "cd00033", "CCP" ], [ "Q5SRT8-1", "cd00043", "CYCLIN" ], [ "P70412-1", "cd00041", "CUB" ], [ "P70419-1", "cd00161", "RICIN" ], [ "Q9EP79-1", "cd13949", "7tm_V1R_pheromone" ], [ "O08911-1", "cd07880", "STKc_p38gamma" ], [ "O08912-1", "cd00161", "RICIN" ], [ "O08918-1", "cd00043", "CYCLIN" ], [ "Q91ZK4-1", "cd00086", "homeodomain" ], [ "P19070-1", "cd00033", "CCP" ], [ "P59708-1", "cd12241", "RRM_SF3B14" ], [ "Q8K2M0-1", "cd00866", "PEBP_euk" ], [ "P21661-1", "cd04059", "Peptidases_S8_Protein_convertases_Kexins_Furin-like" ], [ "Q8BIQ3-1", "cd07765", "KRAB_A-box" ], [ "Q9DB05-1", "cd15832", "SNAP" ], [ "P48076-1", "cd00125", "PLA2c" ], [ "A0A1Y7VK00-1", "cd07765", "KRAB_A-box" ], [ "Q8BGW3-1", "cd00083", "HLH" ], [ "Q6PDM2-1", "cd12597", "RRM1_SRSF1" ], [ "B2RUK9-1", "cd07765", "KRAB_A-box" ], [ "Q9D6A1-1", "cd01378", "MYSc_Myo1" ], [ "Q9Z275-1", "cd00170", "SEC14" ], [ "Q9Z277-1", "cd05505", "Bromo_WSTF_like" ], [ "Q9WVL4-1", "cd05608", "STKc_GRK1" ], [ "P56931-1", "cd14660", "E2F_DD" ], [ "G3X9Y6-1", "cd06660", "Aldo_ket_red" ], [ "Q91Z69-1", "cd11955", "SH3_srGAP1-3" ], [ "Q91Z69-1", "cd07683", "F-BAR_srGAP1" ], [ "Q91Z67-1", "cd11955", "SH3_srGAP1-3" ], [ "Q9WUZ7-1", "cd03030", "GRX_SH3BGR" ], [ "Q91YI0-1", "cd01359", "Argininosuccinate_lyase" ], [ "A0A0U1RQ84-1", "cd07765", "KRAB_A-box" ], [ "Q9ESN6-1", "cd00021", "BBOX" ], [ "Q9ERD6-1", "cd00155", "RasGEF" ], [ "J3QP87-1", "cd05793", "S1_IF1A" ], [ "P00520-1", "cd09935", "SH2_ABL" ], [ "O88307-1", "cd00112", "LDLa" ], [ "O88307-1", "cd00063", "FN3" ], [ "Q8VII3-1", "cd00042", "CY" ], [ "E9PX79-1", "cd16813", "RING_CH-C4HC3_MARCH10" ], [ "Q3UTQ6-1", "cd07765", "KRAB_A-box" ], [ "Q8VEK6-1", "cd15585", "PHD_ING3" ], [ "Q8VEK3-1", "cd12884", "SPRY_hnRNP" ], [ "A0A2R8VJU7-1", "cd01850", "CDC_Septin" ], [ "Q8BQC8-1", "cd07765", "KRAB_A-box" ], [ "Q923B3-1", "cd07936", "SCAN" ], [ "Q923B3-1", "cd07765", "KRAB_A-box" ], [ "Q923B1-1", "cd00844", "MPP_Dbr1_N" ], [ "Q923B0-1", "cd06661", "GGCT_like" ], [ "Q8C0V9-1", "cd14473", "FERM_B-lobe" ], [ "Q8C0V9-1", "cd13185", "FERM_C_FRMD1_FRMD6" ], [ "Q9R007-3", "cd03593", "CLECT_NK_receptors_like" ], [ "O70133-1", "cd00048", "DSRM" ], [ "O70137-1", "cd00086", "homeodomain" ], [ "O70138-1", "cd00094", "HX" ], [ "O70138-1", "cd04278", "ZnMc_MMP" ], [ "Q9Z2H1-1", "cd00068", "GGL" ], [ "Q9Z2H2-1", "cd08737", "RGS_RGS6" ], [ "Q9Z2H2-1", "cd00068", "GGL" ], [ "Q9Z2H5-1", "cd14473", "FERM_B-lobe" ], [ "Q9Z2H6-1", "cd03590", "CLECT_DC-SIGN_like" ], [ "Q5S248-1", "cd00190", "Tryp_SPc" ], [ "Q8VD98-1", "cd03593", "CLECT_NK_receptors_like" ], [ "F6WAU7-1", "cd07765", "KRAB_A-box" ], [ "E9Q6Y4-1", "cd07765", "KRAB_A-box" ], [ "O08899-1", "cd08714", "RGS_RGS4" ], [ "P14847-1", "cd00152", "PTX" ], [ "Q8BY02-1", "cd02640", "R3H_NRF" ], [ "Q7TSY6-1", "cd12632", "RRM1_CELF3_4_5_6" ], [ "Q91VT1-1", "cd16651", "SPL-RING_NSE2" ], [ "Q80ZP0-1", "cd06257", "DnaJ" ], [ "P16294-1", "cd00190", "Tryp_SPc" ], [ "P16297-1", "cd00063", "FN3" ], [ "Q9D1J1-1", "cd13228", "PHear_NECAP" ], [ "P58660-1", "cd08807", "CARD_CARD10_CARMA3" ], [ "Q8BMD5-1", "cd01286", "deoxycytidylate_deaminase" ] ] }, "readme": "Name\n - Mouse UniProtKB Xref CDD\n\nVersion\n - 1.5.27\n\nCreated on\n - 2019-03-15T12:09:02.680538\n\nModified on\n - 2020-04-10T12:37:40.337326\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 Mouse UniProtKB Xref CDD contains mouse [taxid:10090] UniProtKB canonical accessions cross-referenced to CDD 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 Conserved Domain Database is a database of well-annotated multiple sequence alignment models and derived database search models, for ancient domains and full-length proteins.\n\nDescription Domain\n Keywords\n - protein domains\n - CDD\n - cross-reference\n\n Pipeline Steps\n - Step-1: The script loads the UniProtKB canonical accessions that are cross-referenced to CDD 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/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-mus-musculus.nt\n URI: https://data.glygen.org/ln2wwwdata/source/uniprot-proteome-mus-musculus.nt\n Name: mouse_protein_masterlist.csv\n URI: https://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_masterlist.csv\n Output Subdomain\n Name: mouse_protein_xref_cdd.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_xref_cdd.csv\n Name: mouse_protein_xref_cdd.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/mouse_protein_xref_cdd.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: \"4845\"\n Name: \"database_label\"\n Description: \"Label or name assigned to the corresponding identifier in the source database\"\n Unique Values: \"1893\"\n Name: \"database_id\"\n Description: \"Identifier in the database\"\n Unique Values: \"1893\"", "downloadurl": "/ln2data/releases/data/v-1.5.27/reviewed/mouse_protein_xref_cdd.csv" }