{ "bcoid": "GLY_000906", "title": "Pig UniProtKB Xref Pfam", "description": "The Pig UniProtKB Xref Pfam contains pig [taxid:9823] UniProtKB canonical accessions cross-referenced ...", "filename": "pig_protein_xref_pfam.csv", "filetype": "csv", "categories": { "species": [ "Sus scrofa" ], "molecule": [ "Protein" ], "tag": [ "Pfam cross-references" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "A0A4X1U3C8-1...", "protein_xref..." ], [ "A0A287BSN5-1...", "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" } ], [ "A0A4X1U3C8-1", "protein_xref_pfam", "PF00112", "Peptidase_C1" ], [ "A0A287BSN5-1", "protein_xref_pfam", "PF02023", "SCAN" ], [ "A0A287BSN5-1", "protein_xref_pfam", "PF00096", "zf-C2H2" ], [ "F1RV90-1", "protein_xref_pfam", "PF00069", "Pkinase" ], [ "F1S708-1", "protein_xref_pfam", "PF07974", "EGF_2" ], [ "F1S708-1", "protein_xref_pfam", "PF00147", "Fibrinogen_C" ], [ "F1S708-1", "protein_xref_pfam", "PF00041", "fn3" ], [ "A0A8W4FMS3-1", "protein_xref_pfam", "PF00169", "PH" ], [ "A0A8W4FMS3-1", "protein_xref_pfam", "PF00620", "RhoGAP" ], [ "A0A8W4FMS3-1", "protein_xref_pfam", "PF14604", "SH3_9" ], [ "A0A8W4FMS3-1", "protein_xref_pfam", "PF16746", "BAR_3" ], [ "I3L6J1-1", "protein_xref_pfam", "PF02453", "Reticulon" ], [ "A0A5G2RAB5-1", "protein_xref_pfam", "PF07992", "Pyr_redox_2" ], [ "A0A5G2RAB5-1", "protein_xref_pfam", "PF02852", "Pyr_redox_dim" ], [ "A0A287AGD8-1", "protein_xref_pfam", "PF00053", "Laminin_EGF" ], [ "A0A287AGD8-1", "protein_xref_pfam", "PF00055", "Laminin_N" ], [ "A0A287BN22-1", "protein_xref_pfam", "PF16017", "BTB_3" ], [ "A0A287AE97-1", "protein_xref_pfam", "PF01650", "Peptidase_C13" ], [ "A0A286ZXT3-1", "protein_xref_pfam", "PF00454", "PI3_PI4_kinase" ], [ "A0A286ZXT3-1", "protein_xref_pfam", "PF00613", "PI3Ka" ], [ "A0A286ZXT3-1", "protein_xref_pfam", "PF19274", "PI4K_N" ], [ "A0A4X1VDU3-1", "protein_xref_pfam", "PF20637", "ATG5_HBR" ], [ "A0A4X1VDU3-1", "protein_xref_pfam", "PF20638", "ATG5_UblA" ], [ "F1RWM0-1", "protein_xref_pfam", "PF13913", "zf-C2HC_2" ], [ "A0A8D0PQ51-1", "protein_xref_pfam", "PF06388", "DUF1075" ], [ "I3L942-1", "protein_xref_pfam", "PF00400", "WD40" ], [ "I3L942-1", "protein_xref_pfam", "PF02985", "HEAT" ], [ "I3L942-1", "protein_xref_pfam", "PF14538", "Raptor_N" ], [ "A0A4X1U326-1", "protein_xref_pfam", "PF00071", "Ras" ], [ "A0A5G2Q7W2-1", "protein_xref_pfam", "PF13409", "GST_N_2" ], [ "A0A5G2Q7W2-1", "protein_xref_pfam", "PF13410", "GST_C_2" ], [ "A0A287AZX1-1", "protein_xref_pfam", "PF00089", "Trypsin" ], [ "A0A287BPN5-1", "protein_xref_pfam", "PF01175", "Urocanase" ], [ "A0A287BPN5-1", "protein_xref_pfam", "PF17391", "Urocanase_N" ], [ "A0A287BPN5-1", "protein_xref_pfam", "PF17392", "Urocanase_C" ], [ "A0A287BAF3-1", "protein_xref_pfam", "PF00709", "Adenylsucc_synt" ], [ "F1SRD2-1", "protein_xref_pfam", "PF04547", "Anoctamin" ], [ "A0A287AM68-1", "protein_xref_pfam", "PF00069", "Pkinase" ], [ "F1S1B2-1", "protein_xref_pfam", "PF10570", "Myelin-PO_C" ], [ "F1S1B2-1", "protein_xref_pfam", "PF07686", "V-set" ], [ "A0A8W4FCZ2-1", "protein_xref_pfam", "PF13853", "7tm_4" ], [ "F1SU62-1", "protein_xref_pfam", "PF01352", "KRAB" ], [ "F1SU62-1", "protein_xref_pfam", "PF00096", "zf-C2H2" ], [ "F1SU62-1", "protein_xref_pfam", "PF13465", "zf-H2C2_2" ], [ "A0A8D1TIK8-1", "protein_xref_pfam", "PF15393", "DUF4615" ], [ "I3LFU4-1", "protein_xref_pfam", "PF15254", "CCDC14" ], [ "A0A286ZTQ8-1", "protein_xref_pfam", "PF13499", "EF-hand_7" ], [ "A0A286ZTQ8-1", "protein_xref_pfam", "PF09457", "RBD-FIP" ], [ "I3LT93-1", "protein_xref_pfam", "PF02602", "HEM4" ], [ "I3LFU3-1", "protein_xref_pfam", "PF20173", "ZnF_RZ-type" ], [ "A0A5G2RE27-1", "protein_xref_pfam", "PF00622", "SPRY" ], [ "A0A5G2RE27-1", "protein_xref_pfam", "PF13765", "PRY" ], [ "A0A5G2QDB9-1", "protein_xref_pfam", "PF01569", "PAP2" ], [ "A0A287B9Q3-1", "protein_xref_pfam", "PF00047", "ig" ], [ "A0A287B9Q3-1", "protein_xref_pfam", "PF07679", "I-set" ], [ "A0A287B9Q3-1", "protein_xref_pfam", "PF13927", "Ig_3" ], [ "F1SDN3-1", "protein_xref_pfam", "PF14775", "NYD-SP28_assoc" ], [ "F1SDN3-1", "protein_xref_pfam", "PF14772", "NYD-SP28" ], [ "I3LQS2-1", "protein_xref_pfam", "PF06941", "NT5C" ], [ "A0A5G2QFB4-1", "protein_xref_pfam", "PF00501", "AMP-binding" ], [ "A0A5G2QFB4-1", "protein_xref_pfam", "PF13193", "AMP-binding_C" ], [ "K7GSF4-1", "protein_xref_pfam", "PF00013", "KH_1" ], [ "K7GSF4-1", "protein_xref_pfam", "PF05641", "Agenet" ], [ "K7GSF4-1", "protein_xref_pfam", "PF12235", "FXMRP1_C_core" ], [ "K7GSF4-1", "protein_xref_pfam", "PF16098", "FXMR_C2" ], [ "K7GSF4-1", "protein_xref_pfam", "PF17904", "KH_9" ], [ "K7GSF4-1", "protein_xref_pfam", "PF18336", "Tudor_FRX1" ], [ "A0A480LBW8-1", "protein_xref_pfam", "PF12796", "Ank_2" ], [ "F1S414-1", "protein_xref_pfam", "PF12456", "hSac2" ], [ "F1S414-1", "protein_xref_pfam", "PF02383", "Syja_N" ], [ "A0A287A1S5-1", "protein_xref_pfam", "PF00621", "RhoGEF" ], [ "A0A287A1S5-1", "protein_xref_pfam", "PF17838", "PH_16" ], [ "A0A5G2RE32-1", "protein_xref_pfam", "PF00754", "F5_F8_type_C" ], [ "A0A5G2RE32-1", "protein_xref_pfam", "PF00431", "CUB" ], [ "A0A5G2RE32-1", "protein_xref_pfam", "PF00629", "MAM" ], [ "F1RTM0-1", "protein_xref_pfam", "PF00386", "C1q" ], [ "F1RTM0-1", "protein_xref_pfam", "PF01391", "Collagen" ], [ "A0A5G2RCT6-1", "protein_xref_pfam", "PF01432", "Peptidase_M3" ], [ "F1RTM6-1", "protein_xref_pfam", "PF00104", "Hormone_recep" ], [ "F1RTM6-1", "protein_xref_pfam", "PF00105", "zf-C4" ], [ "F1RTM6-1", "protein_xref_pfam", "PF02166", "Androgen_recep" ], [ "F1RPC4-1", "protein_xref_pfam", "PF17751", "SKICH" ], [ "A0A287A1X6-1", "protein_xref_pfam", "PF00104", "Hormone_recep" ], [ "A0A287A1X6-1", "protein_xref_pfam", "PF00105", "zf-C4" ] ] }, "readme": "Name\n - Pig UniProtKB Xref Pfam\n\nVersion\n - v-2.4.1\n\nCreated on\n - 2019-03-15T15:58:30.083377\n\nModified on\n - 2022-09-26T08:56:48.452992\n\nCreated by\n - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu], Jingyue Wu [jingyue.wu@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 Pig UniProtKB Xref Pfam contains pig [taxid:9823] 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/glygener/glygen-backend-integration/blob/master/dataset-maker/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-sus_scrofa.nt\n URI: https:/data.glygen.org/ln2downloads/ebi/2024_02_13/uniprot-proteome-sus_scrofa.nt\n Output Subdomain\n Name: pig_protein_xref_pfam.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/pig_protein_xref_pfam.csv\n Name: pig_protein_xref_pfam.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/pig_protein_xref_pfam.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"20369\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"6894\"\n Name: \"xref_label\"\n Description: \"Label/Name associated with x-ref\"\n Unique Values: \"6894\"", "downloadurl": "/ln2data/releases/data/v-2.4.1/reviewed/pig_protein_xref_pfam.csv" }