{ "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": [ [ "P30613-1...", "protein_xref..." ], [ "P30613-1...", "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" } ], [ "P30613-1", "protein_xref_pfam", "PF00224", "PK" ], [ "P30613-1", "protein_xref_pfam", "PF02887", "PK_C" ], [ "Q92994-1", "protein_xref_pfam", "PF00382", "TFIIB" ], [ "P10242-1", "protein_xref_pfam", "PF00249", "Myb_DNA-binding" ], [ "P10242-1", "protein_xref_pfam", "PF07988", "LMSTEN" ], [ "Q9GZW8-1", "protein_xref_pfam", "PF04103", "CD20" ], [ "O14817-1", "protein_xref_pfam", "PF00335", "Tetraspanin" ], [ "A2RU30-1", "protein_xref_pfam", "PF14722", "KRAP_IP3R_bind" ], [ "Q8N6H7-1", "protein_xref_pfam", "PF01412", "ArfGap" ], [ "Q96J66-1", "protein_xref_pfam", "PF00005", "ABC_tran" ], [ "Q96J66-1", "protein_xref_pfam", "PF00664", "ABC_membrane" ], [ "Q96J65-1", "protein_xref_pfam", "PF00005", "ABC_tran" ], [ "Q96J65-1", "protein_xref_pfam", "PF00664", "ABC_membrane" ], [ "Q9BUZ4-1", "protein_xref_pfam", "PF00097", "zf-C3HC4" ], [ "Q8NC06-1", "protein_xref_pfam", "PF00887", "ACBP" ], [ "Q8IYT4-1", "protein_xref_pfam", "PF00004", "AAA" ], [ "Q53F39-1", "protein_xref_pfam", "PF00149", "Metallophos" ], [ "A6NC51-1", "protein_xref_pfam", "PF10277", "Frag1" ], [ "Q8NBW4-1", "protein_xref_pfam", "PF01490", "Aa_trans" ], [ "Q14766-1", "protein_xref_pfam", "PF07645", "EGF_CA" ], [ "Q14766-1", "protein_xref_pfam", "PF12662", "cEGF" ], [ "Q14766-1", "protein_xref_pfam", "PF00683", "TB" ], [ "P40424-1", "protein_xref_pfam", "PF00046", "Homeodomain" ], [ "P40424-1", "protein_xref_pfam", "PF03792", "PBC" ], [ "P40425-1", "protein_xref_pfam", "PF00046", "Homeodomain" ], [ "P40425-1", "protein_xref_pfam", "PF03792", "PBC" ], [ "P40426-1", "protein_xref_pfam", "PF00046", "Homeodomain" ], [ "P40426-1", "protein_xref_pfam", "PF03792", "PBC" ], [ "P40429-1", "protein_xref_pfam", "PF00572", "Ribosomal_L13" ], [ "P62873-1", "protein_xref_pfam", "PF00400", "WD40" ], [ "P11310-1", "protein_xref_pfam", "PF02770", "Acyl-CoA_dh_M" ], [ "P11310-1", "protein_xref_pfam", "PF02771", "Acyl-CoA_dh_N" ], [ "Q9Y691-1", "protein_xref_pfam", "PF03185", "CaKB" ], [ "Q9Y691-1", "protein_xref_pfam", "PF09303", "KcnmB2_inactiv" ], [ "O60506-1", "protein_xref_pfam", "PF00076", "RRM_1" ], [ "O60506-1", "protein_xref_pfam", "PF18360", "hnRNP_Q_AcD" ], [ "Q969N2-1", "protein_xref_pfam", "PF04113", "Gpi16" ], [ "P09471-1", "protein_xref_pfam", "PF00503", "G-alpha" ], [ "P07237-1", "protein_xref_pfam", "PF00085", "Thioredoxin" ], [ "Q9NXE4-1", "protein_xref_pfam", "PF14724", "mit_SMPDase" ], [ "Q9Y4J8-1", "protein_xref_pfam", "PF00569", "ZZ" ], [ "Q9Y4J8-1", "protein_xref_pfam", "PF09068", "EF-hand_2" ], [ "Q9Y4J8-1", "protein_xref_pfam", "PF09069", "EF-hand_3" ], [ "P13804-1", "protein_xref_pfam", "PF00766", "ETF_alpha" ], [ "P13804-1", "protein_xref_pfam", "PF01012", "ETF" ], [ "Q9NQU5-1", "protein_xref_pfam", "PF00786", "PBD" ], [ "H0YL14-1", "protein_xref_pfam", "PF17685", "DUF5533" ], [ "Q9GZS3-1", "protein_xref_pfam", "PF00400", "WD40" ], [ "Q9BXR3-1", "protein_xref_pfam", "PF00517", "GP41" ], [ "Q9BXR3-1", "protein_xref_pfam", "PF13804", "HERV-K_env_2" ], [ "Q969W1-1", "protein_xref_pfam", "PF01529", "DHHC" ], [ "Q13228-1", "protein_xref_pfam", "PF05694", "SBP56" ], [ "P02741-1", "protein_xref_pfam", "PF00354", "Pentaxin" ], [ "P29353-1", "protein_xref_pfam", "PF00017", "SH2" ], [ "Q5VVP1-1", "protein_xref_pfam", "PF15371", "DUF4599" ], [ "Q5VVP1-1", "protein_xref_pfam", "PF14650", "FAM75" ], [ "Q9H4G0-1", "protein_xref_pfam", "PF00373", "FERM_M" ], [ "Q9H4G0-1", "protein_xref_pfam", "PF04382", "SAB" ], [ "Q9H4G0-1", "protein_xref_pfam", "PF05902", "4_1_CTD" ], [ "Q9H4G0-1", "protein_xref_pfam", "PF08736", "FA" ], [ "Q9H4G0-1", "protein_xref_pfam", "PF09379", "FERM_N" ], [ "Q9H4G0-1", "protein_xref_pfam", "PF09380", "FERM_C" ], [ "Q8N865-1", "protein_xref_pfam", "PF15093", "DUF4555" ], [ "Q9Y547-1", "protein_xref_pfam", "PF00754", "F5_F8_type_C" ], [ "A6NIR3-1", "protein_xref_pfam", "PF01412", "ArfGap" ], [ "A6NIR3-1", "protein_xref_pfam", "PF12796", "Ank_2" ], [ "Q92562-1", "protein_xref_pfam", "PF02383", "Syja_N" ], [ "Q86VY4-1", "protein_xref_pfam", "PF00956", "NAP" ], [ "Q86VY9-1", "protein_xref_pfam", "PF10177", "DUF2371" ], [ "Q9Y5S9-1", "protein_xref_pfam", "PF00076", "RRM_1" ], [ "P41250-1", "protein_xref_pfam", "PF00458", "WHEP-TRS" ], [ "P41250-1", "protein_xref_pfam", "PF00587", "tRNA-synt_2b" ], [ "Q8TF17-1", "protein_xref_pfam", "PF00018", "SH3_1" ], [ "P19075-1", "protein_xref_pfam", "PF00335", "Tetraspanin" ], [ "Q3C1V0-1", "protein_xref_pfam", "PF04103", "CD20" ], [ "Q96QE4-1", "protein_xref_pfam", "PF14914", "LRRC37AB_C" ], [ "Q96QE4-1", "protein_xref_pfam", "PF13855", "LRR_8" ], [ "Q96QE4-1", "protein_xref_pfam", "PF15779", "LRRC37" ], [ "Q9P0K1-1", "protein_xref_pfam", "PF01562", "Pep_M12B_propep" ], [ "Q99519-1", "protein_xref_pfam", "PF13088", "BNR_2" ], [ "O15417-1", "protein_xref_pfam", "PF01426", "BAH" ], [ "Q96RU7-1", "protein_xref_pfam", "PF00069", "Pkinase" ], [ "P49841-1", "protein_xref_pfam", "PF00069", "Pkinase" ], [ "O75448-1", "protein_xref_pfam", "PF11277", "Med24_N" ] ] }, "readme": "Name\n - Human UniProtKB Xref Pfam\n\nVersion\n - 1.11.2\n\nCreated on\n - 2019-03-15T15:58:30.083377\n\nModified on\n - 2022-01-19T10:54:09.692925\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], Karina Martinez [karinamartinez@gwu.edu], Amanda Bell [amandab2140@gwu.edu], Jonathon Keeney [keeneyjg@gwu.edu], Millicent Quartey [mquartey@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. 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/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-homo-sapiens.nt\n URI: https://data.glygen.org//ln2downloads/ebi/2021_03/uniprot-proteome-homo-sapiens.nt\n Output Subdomain\n Name: human_protein_xref_pfam.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.12.1/reviewed/human_protein_xref_pfam.csv\n Name: human_protein_xref_pfam.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.12.1/reviewed/human_protein_xref_pfam.stat.csv", "downloadurl": "/ln2data/releases/data/v-1.12.1/reviewed/human_protein_xref_pfam.csv" }