{ "bcoid": "GLY_000121", "title": "Human UniProtKB Xref Pfam", "description": "The Human UniProtKB Xref Pfam contains human [taxid:9606] UniProtKB canonical accessions cross-referenced ...", "filename": "human_protein_xref_pfam.csv", "filetype": "csv", "categories": { "species": "Homo Sapiens", "molecule": "Protein", "tags": "Pfam cross-references", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q8TBF5-1...", "PF08320..." ], [ "Q8TBF4-1...", "PF00076..." ] ], "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" } ], [ "Q8TBF5-1", "PF08320", "PIG-X" ], [ "Q8TBF4-1", "PF00076", "RRM_1" ], [ "Q8TBF4-1", "PF00098", "zf-CCHC" ], [ "Q9NQ79-1", "PF07593", "UnbV_ASPIC" ], [ "Q9NQ79-1", "PF07645", "EGF_CA" ], [ "Q9NVL8-1", "PF15398", "DUF4619" ], [ "Q9NRQ5-1", "PF15012", "DUF4519" ], [ "Q8IZF5-1", "PF00002", "7tm_2" ], [ "Q8IZF5-1", "PF01825", "GPS" ], [ "Q8IZF5-1", "PF02793", "HRM" ], [ "P30613-1", "PF00224", "PK" ], [ "P30613-1", "PF02887", "PK_C" ], [ "Q5H9L4-1", "PF04658", "TAFII55_N" ], [ "Q9BZL4-1", "PF12796", "Ank_2" ], [ "Q9BZL4-1", "PF15898", "PRKG1_interact" ], [ "Q9NVL1-1", "PF14904", "FAM86" ], [ "Q5QJ38-1", "PF01023", "S_100" ], [ "Q9NQ75-1", "PF14604", "SH3_9" ], [ "Q9NQ75-1", "PF08824", "Serine_rich" ], [ "Q9NQ75-1", "PF12026", "CAS_C" ], [ "P20930-1", "PF03516", "Filaggrin" ], [ "P20930-1", "PF01023", "S_100" ], [ "P20933-1", "PF01112", "Asparaginase_2" ], [ "P20936-1", "PF00017", "SH2" ], [ "P20936-1", "PF00018", "SH3_1" ], [ "P20936-1", "PF00169", "PH" ], [ "P20936-1", "PF00168", "C2" ], [ "P20936-1", "PF00616", "RasGAP" ], [ "A0A1W2PQ27-1", "PF04722", "Ssu72" ], [ "Q8NFX7-1", "PF15277", "Sec3-PIP2_bind" ], [ "Q8NFX7-1", "PF00957", "Synaptobrevin" ], [ "Q496A3-1", "PF15160", "SASRP1" ], [ "P83859-1", "PF11109", "RFamide_26RFa" ], [ "P40617-1", "PF00025", "Arf" ], [ "Q70EL4-1", "PF00443", "UCH" ], [ "A0A0A0MQW5-1", "PF07714", "Pkinase_Tyr" ], [ "Q15573-1", "PF14929", "TAF1_subA" ], [ "Q9BQP9-1", "PF01273", "LBP_BPI_CETP" ], [ "Q9H999-1", "PF03630", "Fumble" ], [ "P23919-1", "PF02223", "Thymidylate_kin" ], [ "Q8NHX4-1", "PF15662", "SPATA3" ], [ "Q8NHX9-1", "PF00520", "Ion_trans" ], [ "A8MU46-1", "PF00307", "CH" ], [ "Q9NXR8-1", "PF12998", "ING" ], [ "Q9C0H2-1", "PF04906", "Tweety" ], [ "Q9C0H5-1", "PF00620", "RhoGAP" ], [ "Q9C0H5-1", "PF00784", "MyTH4" ], [ "Q4VXU2-1", "PF00076", "RRM_1" ], [ "Q4VXU2-1", "PF00658", "PABP" ], [ "Q9C0H6-1", "PF00651", "BTB" ], [ "Q9C0H6-1", "PF01344", "Kelch_1" ], [ "Q9C0H6-1", "PF07707", "BACK" ], [ "Q9C0H9-5", "PF03915", "AIP3" ], [ "Q9NXR1-2", "PF04880", "NUDE_C" ], [ "Q00537-1", "PF00069", "Pkinase" ], [ "Q00536-1", "PF00069", "Pkinase" ], [ "Q9NXR5-1", "PF12796", "Ank_2" ], [ "Q00532-1", "PF00069", "Pkinase" ], [ "Q96J66-1", "PF00005", "ABC_tran" ], [ "Q96J66-1", "PF00664", "ABC_membrane" ], [ "O00244-1", "PF00403", "HMA" ], [ "Q9H2V7-1", "PF07690", "MFS_1" ], [ "O00241-1", "PF07654", "C1-set" ], [ "O00241-1", "PF07686", "V-set" ], [ "O00716-1", "PF16421", "E2F_CC-MB" ], [ "O00716-1", "PF02319", "E2F_TDP" ], [ "Q8IX01-1", "PF01585", "G-patch" ], [ "Q8IX01-1", "PF01805", "Surp" ], [ "Q3LI54-1", "PF11759", "KRTAP" ], [ "Q9UBM1-1", "PF04191", "PEMT" ], [ "A8MTA8-1", "PF10629", "DUF2475" ], [ "Q9UBM4-1", "PF13855", "LRR_8" ], [ "P24522-1", "PF01248", "Ribosomal_L7Ae" ], [ "Q13835-1", "PF00514", "Arm" ], [ "Q7Z3T1-1", "PF13853", "7tm_4" ], [ "P40424-1", "PF00046", "Homeodomain" ], [ "P40424-1", "PF03792", "PBC" ], [ "P40425-1", "PF00046", "Homeodomain" ], [ "P40425-1", "PF03792", "PBC" ], [ "P40426-1", "PF00046", "Homeodomain" ], [ "P40426-1", "PF03792", "PBC" ], [ "Q8IZK6-1", "PF08016", "PKD_channel" ], [ "P28566-1", "PF00001", "7tm_1" ], [ "P51991-1", "PF00076", "RRM_1" ] ] }, "readme": "Name\n - Human UniProtKB Xref Pfam\n\nVersion\n - 1.4.5\n\nCreated on\n - 2019-03-15T15:58:30.083377\n\nModified on\n - 2019-04-23T17:44:46.620489\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 Human UniProtKB Xref Pfam contains human [taxid:9606] UniProtKB canonical accessions cross-referenced to Pfam database accessions/identifiers. Pfam is a database of protein families that includes their annotations and multiple sequence alignments generated using hidden Markov models. The dataset is derived from 2019-05 UniProt release. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\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/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-9606-homo-sapiens-2019-05.nt\n URI: https://data.glygen.org/ln2data/releases/data/v-1.4.5/source/uniprot-proteome-9606-homo-sapiens-2019-05.nt\n Output Subdomain\n Name: human_protein_xref_pfam.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.4.5/reviewed/human_protein_xref_pfam.csv\n Name: human_protein_xref_pfam.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.4.5/reviewed/human_protein_xref_pfam.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: \"18562\"\n Name: \"database_label\"\n Description: \"Label or name assigned to the corresponding identifier in the source database\"\n Unique Values: \"6209\"\n Name: \"database_id\"\n Description: \"Identifier in the database\"\n Unique Values: \"6209\"", "downloadurl": "/ln2data/releases/data/v-1.4.5/reviewed/human_protein_xref_pfam.csv" }