{ "bcoid": "GLY_000810", "title": "Yeast Phosphorylation Sites (UniProtKB)", "description": "The Yeast Phosphorylation Sites (UniProtKB) dataset contains yeast [taxid:559292] UniProtKB canonical ...", "filename": "yeast_proteoform_phosphorylation_sites_uniprotkb.csv", "filetype": "csv", "categories": { "species": [ "Saccharomyces cerevisiae S288C" ], "molecule": [ "Proteoform" ], "tag": [ "Phosphorylation Sites" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "P38628-1...", "67..." ], [ "P38628-1...", "67..." ] ], "headers": [ "uniprotkb_ca...", "phosphorylat..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "phosphorylation_site_uniprotkb" }, { "type": "string", "label": "amino_acid" }, { "type": "string", "label": "kinase_uniprotkb_canonical_ac" }, { "type": "string", "label": "kinase_gene_name" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" }, { "type": "string", "label": "src_xref_key" }, { "type": "string", "label": "src_xref_id" }, { "type": "string", "label": "phosphorylated_residue" }, { "type": "string", "label": "phosphorylation_annotation" }, { "type": "string", "label": "eco_id" } ], [ "P38628-1", "67", "Ser", "", "", "protein_xref_uniprotkb", "P38628", "protein_xref_uniprotkb", "P38628", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P38628-1", "67", "Ser", "", "", "protein_xref_pubmed", "17330950", "protein_xref_uniprotkb", "P38628", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q03262-1", "158", "Ser", "", "", "protein_xref_uniprotkb", "Q03262", "protein_xref_uniprotkb", "Q03262", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q03262-1", "158", "Ser", "", "", "protein_xref_pubmed", "15665377", "protein_xref_uniprotkb", "Q03262", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P37012-1", "119", "Ser", "", "", "protein_xref_uniprotkb", "P37012", "protein_xref_uniprotkb", "P37012", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P37012-1", "119", "Ser", "", "", "protein_xref_pubmed", "19779198", "protein_xref_uniprotkb", "P37012", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P37012-1", "119", "Ser", "", "", "protein_xref_pubmed", "18407956", "protein_xref_uniprotkb", "P37012", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P11986-1", "184", "Ser", "", "", "protein_xref_uniprotkb", "P11986", "protein_xref_uniprotkb", "P11986", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P11986-1", "184", "Ser", "", "", "protein_xref_pubmed", "23902760", "protein_xref_uniprotkb", "P11986", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P04807-1", "158", "Ser", "", "", "protein_xref_uniprotkb", "P04807", "protein_xref_uniprotkb", "P04807", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P04807-1", "158", "Ser", "", "", "protein_xref_pubmed", "18407956", "protein_xref_uniprotkb", "P04807", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P04807-1", "158", "Ser", "", "", "protein_xref_uniprotkb", "P04807", "protein_xref_uniprotkb", "P04807", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P04807-1", "158", "Ser", "", "", "protein_xref_pubmed", "9047292", "protein_xref_uniprotkb", "P04807", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P14540-1", "63", "Ser", "", "", "protein_xref_uniprotkb", "P14540", "protein_xref_uniprotkb", "P14540", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P14540-1", "63", "Ser", "", "", "protein_xref_pubmed", "19779198", "protein_xref_uniprotkb", "P14540", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P33401-1", "120", "Ser", "", "", "protein_xref_uniprotkb", "P33401", "protein_xref_uniprotkb", "P33401", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P33401-1", "120", "Ser", "", "", "protein_xref_pubmed", "17330950", "protein_xref_uniprotkb", "P33401", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P33401-1", "120", "Ser", "", "", "protein_xref_pubmed", "18407956", "protein_xref_uniprotkb", "P33401", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P33401-1", "120", "Ser", "", "", "protein_xref_pubmed", "19779198", "protein_xref_uniprotkb", "P33401", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P11986-1", "296", "Ser", "", "", "protein_xref_uniprotkb", "P11986", "protein_xref_uniprotkb", "P11986", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P11986-1", "296", "Ser", "", "", "protein_xref_pubmed", "23902760", "protein_xref_uniprotkb", "P11986", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P40495-1", "98", "Ser", "", "", "protein_xref_uniprotkb", "P40495", "protein_xref_uniprotkb", "P40495", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P40495-1", "98", "Ser", "", "", "protein_xref_pubmed", "18407956", "protein_xref_uniprotkb", "P40495", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P00812-1", "270", "Thr", "", "", "protein_xref_uniprotkb", "P00812", "protein_xref_uniprotkb", "P00812", "Phosphothreonine", "Phosphothreonine", "ECO_0007744" ], [ "P00812-1", "270", "Thr", "", "", "protein_xref_pubmed", "18407956", "protein_xref_uniprotkb", "P00812", "Phosphothreonine", "Phosphothreonine", "ECO_0007744" ], [ "P36010-1", "95", "Thr", "", "", "protein_xref_uniprotkb", "P36010", "protein_xref_uniprotkb", "P36010", "Phosphothreonine", "Phosphothreonine", "ECO_0007744" ], [ "P36010-1", "95", "Thr", "", "", "protein_xref_pubmed", "18407956", "protein_xref_uniprotkb", "P36010", "Phosphothreonine", "Phosphothreonine", "ECO_0007744" ], [ "P04076-1", "27", "Ser", "", "", "protein_xref_uniprotkb", "P04076", "protein_xref_uniprotkb", "P04076", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P04076-1", "27", "Ser", "", "", "protein_xref_pubmed", "18407956", "protein_xref_uniprotkb", "P04076", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "O14467-1", "143", "Ser", "", "", "protein_xref_uniprotkb", "O14467", "protein_xref_uniprotkb", "O14467", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "O14467-1", "143", "Ser", "", "", "protein_xref_pubmed", "18407956", "protein_xref_uniprotkb", "O14467", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "O14467-1", "143", "Ser", "", "", "protein_xref_pubmed", "19779198", "protein_xref_uniprotkb", "O14467", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "O14467-1", "143", "Ser", "", "", "protein_xref_pubmed", "17287358", "protein_xref_uniprotkb", "O14467", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "O14467-1", "143", "Ser", "", "", "protein_xref_pubmed", "17330950", "protein_xref_uniprotkb", "O14467", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "O14467-1", "143", "Ser", "", "", "protein_xref_pubmed", "15665377", "protein_xref_uniprotkb", "O14467", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q02959-1", "629", "Ser", "", "", "protein_xref_uniprotkb", "Q02959", "protein_xref_uniprotkb", "Q02959", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q02959-1", "629", "Ser", "", "", "protein_xref_pubmed", "18407956", "protein_xref_uniprotkb", "Q02959", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q02959-1", "629", "Ser", "", "", "protein_xref_pubmed", "17287358", "protein_xref_uniprotkb", "Q02959", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q02725-1", "50", "Ser", "", "", "protein_xref_uniprotkb", "Q02725", "protein_xref_uniprotkb", "Q02725", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q02725-1", "50", "Ser", "", "", "protein_xref_pubmed", "19779198", "protein_xref_uniprotkb", "Q02725", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P53252-1", "233", "Thr", "", "", "protein_xref_uniprotkb", "P53252", "protein_xref_uniprotkb", "P53252", "Phosphothreonine", "Phosphothreonine", "ECO_0007744" ], [ "P53252-1", "233", "Thr", "", "", "protein_xref_pubmed", "17761666", "protein_xref_uniprotkb", "P53252", "Phosphothreonine", "Phosphothreonine", "ECO_0007744" ], [ "P53252-1", "233", "Thr", "", "", "protein_xref_pubmed", "18407956", "protein_xref_uniprotkb", "P53252", "Phosphothreonine", "Phosphothreonine", "ECO_0007744" ], [ "P53252-1", "233", "Thr", "", "", "protein_xref_pubmed", "19779198", "protein_xref_uniprotkb", "P53252", "Phosphothreonine", "Phosphothreonine", "ECO_0007744" ], [ "P53252-1", "233", "Thr", "", "", "protein_xref_pubmed", "17330950", "protein_xref_uniprotkb", "P53252", "Phosphothreonine", "Phosphothreonine", "ECO_0007744" ], [ "P53252-1", "233", "Thr", "", "", "protein_xref_pubmed", "15665377", "protein_xref_uniprotkb", "P53252", "Phosphothreonine", "Phosphothreonine", "ECO_0007744" ], [ "P07278-1", "79", "Ser", "", "", "protein_xref_uniprotkb", "P07278", "protein_xref_uniprotkb", "P07278", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P07278-1", "79", "Ser", "", "", "protein_xref_pubmed", "20702584", "protein_xref_uniprotkb", "P07278", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P27692-1", "188", "Ser", "", "", "protein_xref_uniprotkb", "P27692", "protein_xref_uniprotkb", "P27692", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P27692-1", "188", "Ser", "", "", "protein_xref_pubmed", "19779198", "protein_xref_uniprotkb", "P27692", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P38845-1", "343", "Ser", "", "", "protein_xref_uniprotkb", "P38845", "protein_xref_uniprotkb", "P38845", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P38845-1", "343", "Ser", "", "", "protein_xref_pubmed", "19779198", "protein_xref_uniprotkb", "P38845", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P46676-1", "712", "Ser", "", "", "protein_xref_uniprotkb", "P46676", "protein_xref_uniprotkb", "P46676", "Phosphoserine", "Phosphoserine; by ATM or ATR", "" ], [ "Q04279-1", "467", "Thr", "", "", "protein_xref_uniprotkb", "Q04279", "protein_xref_uniprotkb", "Q04279", "Phosphothreonine", "Phosphothreonine", "ECO_0007744" ], [ "Q04279-1", "467", "Thr", "", "", "protein_xref_pubmed", "19779198", "protein_xref_uniprotkb", "Q04279", "Phosphothreonine", "Phosphothreonine", "ECO_0007744" ], [ "P11710-1", "178", "Thr", "", "", "protein_xref_uniprotkb", "P11710", "protein_xref_uniprotkb", "P11710", "Phosphothreonine", "Phosphothreonine", "ECO_0007744" ], [ "P11710-1", "178", "Thr", "", "", "protein_xref_pubmed", "17330950", "protein_xref_uniprotkb", "P11710", "Phosphothreonine", "Phosphothreonine", "ECO_0007744" ], [ "Q07825-1", "95", "Ser", "", "", "protein_xref_uniprotkb", "Q07825", "protein_xref_uniprotkb", "Q07825", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q07825-1", "95", "Ser", "", "", "protein_xref_pubmed", "18407956", "protein_xref_uniprotkb", "Q07825", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q07825-1", "95", "Ser", "", "", "protein_xref_pubmed", "19779198", "protein_xref_uniprotkb", "Q07825", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P53273-1", "152", "Ser", "", "", "protein_xref_uniprotkb", "P53273", "protein_xref_uniprotkb", "P53273", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P53273-1", "152", "Ser", "", "", "protein_xref_pubmed", "17330950", "protein_xref_uniprotkb", "P53273", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P53551-1", "174", "Ser", "", "", "protein_xref_uniprotkb", "P53551", "protein_xref_uniprotkb", "P53551", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P53551-1", "174", "Ser", "", "", "protein_xref_pubmed", "17330950", "protein_xref_uniprotkb", "P53551", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P54791-1", "9", "Ser", "", "", "protein_xref_uniprotkb", "P54791", "protein_xref_uniprotkb", "P54791", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P54791-1", "9", "Ser", "", "", "protein_xref_pubmed", "18407956", "protein_xref_uniprotkb", "P54791", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P36145-1", "106", "Ser", "", "", "protein_xref_uniprotkb", "P36145", "protein_xref_uniprotkb", "P36145", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P36145-1", "106", "Ser", "", "", "protein_xref_pubmed", "18407956", "protein_xref_uniprotkb", "P36145", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P47069-1", "190", "Ser", "", "", "protein_xref_uniprotkb", "P47069", "protein_xref_uniprotkb", "P47069", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P47069-1", "190", "Ser", "", "", "protein_xref_pubmed", "34586062", "protein_xref_uniprotkb", "P47069", "Phosphoserine", "Phosphoserine", "ECO_0000269" ], [ "P34216-1", "251", "Thr", "", "", "protein_xref_uniprotkb", "P34216", "protein_xref_uniprotkb", "P34216", "Phosphothreonine", "Phosphothreonine", "ECO_0007744" ], [ "P34216-1", "251", "Thr", "", "", "protein_xref_pubmed", "19779198", "protein_xref_uniprotkb", "P34216", "Phosphothreonine", "Phosphothreonine", "ECO_0007744" ], [ "Q04279-1", "48", "Ser", "", "", "protein_xref_uniprotkb", "Q04279", "protein_xref_uniprotkb", "Q04279", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q04279-1", "48", "Ser", "", "", "protein_xref_pubmed", "17287358", "protein_xref_uniprotkb", "Q04279", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P32458-1", "2", "Ser", "", "", "protein_xref_uniprotkb", "P32458", "protein_xref_uniprotkb", "P32458", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P32458-1", "2", "Ser", "", "", "protein_xref_pubmed", "15665377", "protein_xref_uniprotkb", "P32458", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q12221-1", "872", "Ser", "", "", "protein_xref_uniprotkb", "Q12221", "protein_xref_uniprotkb", "Q12221", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q12221-1", "872", "Ser", "", "", "protein_xref_pubmed", "19779198", "protein_xref_uniprotkb", "Q12221", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q07084-1", "703", "Ser", "", "", "protein_xref_uniprotkb", "Q07084", "protein_xref_uniprotkb", "Q07084", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q07084-1", "703", "Ser", "", "", "protein_xref_pubmed", "18407956", "protein_xref_uniprotkb", "Q07084", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q07084-1", "703", "Ser", "", "", "protein_xref_pubmed", "19779198", "protein_xref_uniprotkb", "Q07084", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P30665-1", "69", "Ser", "", "", "protein_xref_uniprotkb", "P30665", "protein_xref_uniprotkb", "P30665", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "P30665-1", "69", "Ser", "", "", "protein_xref_pubmed", "19779198", "protein_xref_uniprotkb", "P30665", "Phosphoserine", "Phosphoserine", "ECO_0007744" ], [ "Q12246-1", "454", "Ser", "", "", "protein_xref_uniprotkb", "Q12246", "protein_xref_uniprotkb", "Q12246", "Phosphoserine", "Phosphoserine", "ECO_0007744" ] ] }, "readme": "Name\n - Yeast Phosphorylation Sites (UniProtKB)\n\nVersion\n - v-2.2.1\n\nCreated on\n - 2022-09-06T09:53:09.953304\n\nModified on\n - 2023-09-11T20:48:19\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 Yeast Phosphorylation Sites (UniProtKB) dataset contains yeast [taxid:559292] UniProtKB canonical accessions with information on reported and predicted phosphoryation sites with evidence in UniProtKB database. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen\n\nDescription Domain\n Keywords\n - phosphoryation Sites\n - ptm processing\n - UniProtKB\n\n Pipeline Steps\n - Step-1: The script loads the phosphorylation information from the triplestore conatining triples from the nt file and extracts as a csv dataset\n\nExecution Domain\n Scripts - https://github.com/glygener/glygen-backend-integration/blob/master/dataset-maker/make-proteoform-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-saccharomyces-cerevisiae.nt\n URI: https:/data.glygen.org/ln2downloads/ebi/2023_07_11/uniprot-proteome-saccharomyces-cerevisiae.nt\n Output Subdomain\n Name: yeast_proteoform_phosphorylation_sites_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/yeast_proteoform_phosphorylation_sites_uniprotkb.csv\n Name: yeast_proteoform_phosphorylation_sites_uniprotkb.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.2.1/reviewed/yeast_proteoform_phosphorylation_sites_uniprotkb.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"2044\"\n Name: \"phosphorylation_site_uniprotkb\"\n Description: \"Site on the protein sequence of the UniProtKB entry where phosphorylation is observed\"\n Unique Values: \"1210\"\n Name: \"amino_acid\"\n Description: \"Three letter abbreviation code of the amino acid\"\n Unique Values: \"4\"\n Name: \"kinase_uniprotkb_canonical_ac\"\n Description: \"The UniProtKB canonical accession for the kinase enzyme that is phosphorylating the protein\"\n Unique Values: \"1\"\n Name: \"kinase_gene_name\"\n Description: \"\"\n Unique Values: \"1\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"2\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"2118\"\n Name: \"src_xref_key\"\n Description: \"Source Xref key\"\n Unique Values: \"1\"\n Name: \"src_xref_id\"\n Description: \"Source X-ref ID\"\n Unique Values: \"2044\"\n Name: \"phosphorylated_residue\"\n Description: \"The amino acid that is modified by phosphorylation\"\n Unique Values: \"4\"\n Name: \"phosphorylation_annotation\"\n Description: \"The phosphorylation annotation in UniProtKB that provides more context and description of a phosphorylation event on a protein.\"\n Unique Values: \"71\"\n Name: \"eco_id\"\n Description: \"Evidence & Conclusion Ontology (ECO) identifier\"\n Unique Values: \"6\"", "downloadurl": "/ln2data/releases/data/v-2.2.1/reviewed/yeast_proteoform_phosphorylation_sites_uniprotkb.csv" }