{ "bcoid": "GLY_000239", "title": "Human N-Glycosylation Sequon", "description": "The Human N-Glycosylation Sequon dataset contains N-glycosylation sequon or motif or consensus sequence ...", "filename": "human_protein_glycosylation_motifs.csv", "filetype": "csv", "categories": { "species": "Homo sapiens", "molecule": "Protein", "tags": "N-Glycosylation Sequon", "file_type": "csv", "status": "Reviewed", "scope": "internal" }, "minitable": { "content": [ [ "Q9Y6C9-1...", "277..." ], [ "Q658T7-1...", "282..." ] ], "headers": [ "uniprotkb_ca...", "start_pos..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "start_pos" }, { "type": "string", "label": "end_pos" }, { "type": "string", "label": "motif" } ], [ "Q9Y6C9-1", "277", "279", "NMS" ], [ "Q658T7-1", "282", "284", "NLS" ], [ "P30613-1", "6", "8", "NIS" ], [ "P30613-1", "118", "120", "NFS" ], [ "Q5MIZ7-1", "455", "457", "NKT" ], [ "Q5MIZ7-1", "481", "483", "NTS" ], [ "Q5MIZ7-1", "530", "532", "NNT" ], [ "Q5MIZ7-1", "625", "627", "NGT" ], [ "Q5MIZ7-1", "784", "786", "NGT" ], [ "Q5MIZ7-1", "801", "803", "NGS" ], [ "A0A1W2PQ27-1", "17", "19", "NRS" ], [ "P51788-1", "127", "129", "NTS" ], [ "P51788-1", "232", "234", "NES" ], [ "P51788-1", "403", "405", "NRT" ], [ "P51788-1", "784", "786", "NFS" ], [ "P23919-1", "111", "113", "NFS" ], [ "Q8NHX4-1", "25", "27", "NST" ], [ "Q8NHX9-1", "198", "200", "NSS" ], [ "Q8NHX9-1", "611", "613", "NSS" ], [ "Q8NHX9-1", "618", "620", "NGS" ], [ "Q9NXR8-1", "190", "192", "NNS" ], [ "Q9NXR8-1", "191", "193", "NST" ], [ "Q9NXR8-1", "203", "205", "NSS" ], [ "Q9NXR8-1", "288", "290", "NAS" ], [ "Q9NXR8-1", "306", "308", "NKS" ], [ "Q9C0H5-1", "76", "78", "NTS" ], [ "Q9C0H5-1", "84", "86", "NAS" ], [ "Q9C0H5-1", "837", "839", "NDT" ], [ "Q9C0H9-5", "296", "298", "NLS" ], [ "Q9C0H9-5", "855", "857", "NKS" ], [ "Q9C0H9-5", "1151", "1153", "NET" ], [ "Q9C0H9-5", "1178", "1180", "NSS" ], [ "Q9NXR1-2", "284", "286", "NRT" ], [ "Q9NXR5-1", "85", "87", "NVS" ], [ "Q9NXR5-1", "155", "157", "NAS" ], [ "Q9NXR5-1", "266", "268", "NSS" ], [ "Q9NXR5-1", "351", "353", "NGS" ], [ "Q9NXR7-2", "164", "166", "NWT" ], [ "Q96J66-1", "11", "13", "NSS" ], [ "Q96J66-1", "633", "635", "NLS" ], [ "Q96J66-1", "713", "715", "NGT" ], [ "Q96J66-1", "838", "840", "NSS" ], [ "Q96J66-1", "844", "846", "NGT" ], [ "Q96J66-1", "992", "994", "NYS" ], [ "Q96J66-1", "1162", "1164", "NLT" ], [ "Q96J66-1", "1277", "1279", "NFS" ], [ "P40424-1", "315", "317", "NVS" ], [ "P40424-1", "339", "341", "NMS" ], [ "P40425-1", "250", "252", "NFS" ], [ "P40425-1", "348", "350", "NLS" ], [ "P40425-1", "402", "404", "NGS" ], [ "P40426-1", "241", "243", "NFS" ], [ "P40426-1", "326", "328", "NQT" ], [ "P40426-1", "383", "385", "NQT" ], [ "Q9H2I8-1", "10", "12", "NHS" ], [ "P08842-1", "47", "49", "NKT" ], [ "P08842-1", "259", "261", "NLT" ], [ "P08842-1", "333", "335", "NDT" ], [ "P08842-1", "459", "461", "NST" ], [ "P03891-1", "88", "90", "NTT" ], [ "P03891-1", "150", "152", "NVS" ], [ "P03891-1", "171", "173", "NQT" ], [ "P03891-1", "199", "201", "NMT" ], [ "P03891-1", "204", "206", "NLT" ], [ "P03891-1", "222", "224", "NSS" ], [ "P03891-1", "273", "275", "NNS" ], [ "Q5VUR7-1", "100", "102", "NRT" ], [ "Q5VUR7-1", "166", "168", "NNT" ], [ "Q5VUR7-1", "389", "391", "NNT" ], [ "Q5VUR7-1", "392", "394", "NKS" ], [ "Q5VUR7-1", "721", "723", "NNS" ], [ "Q5VUR7-1", "722", "724", "NST" ], [ "P02760-1", "36", "38", "NIS" ], [ "P02760-1", "115", "117", "NIT" ], [ "P02760-1", "250", "252", "NGT" ], [ "P02763-1", "33", "35", "NAT" ], [ "P02763-1", "56", "58", "NKS" ], [ "P02763-1", "72", "74", "NKT" ], [ "P02763-1", "93", "95", "NTT" ], [ "P02763-1", "103", "105", "NGT" ], [ "P02765-1", "156", "158", "NDT" ], [ "P02765-1", "176", "178", "NGS" ], [ "P02766-1", "118", "120", "NDS" ], [ "Q9H5J8-1", "21", "23", "NRS" ] ] }, "readme": "Name\n - Human N-Glycosylation Sequon\n\nVersion\n - 1.5.18\n\nCreated on\n - 2019-09-06T14:06:38.966707\n\nModified on\n - 2020-04-10T11:44:59.698908\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 N-Glycosylation Sequon dataset contains N-glycosylation sequon or motif or consensus sequence for human [taxid:9606] UniProtKB canonical sequences identified by the script. The script identifies the N-glycosylation sequon pattern - Asn-X-Ser/Thr , where X is any amino acid except proline (Pro) for UniProtKB accessions. The dataset is derived form 2019-09 UniprotKB release.\n\nDescription Domain\n Keywords\n - n-glycosylation sequon\n - NXS/T\n - n-glycosylation motif\n - n-glycosylation consensus sequence\n\n Pipeline Steps\n - Step-1: The script uses the PS Scan tool (accession- PS00001) from ProSite to extracts the N-glycosylation pattern/sequon/motif N-{P}-[ST]-{P} where P is not a proline from the UniProtKB canonical sequences. More info - https://prosite.expasy.org/PDOC00001, https://prosite.expasy.org/PS00001 and extracts as a csv.\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: human_protein_canonicalsequences.fasta\n URI: https://data.glygen.org/ln2data/releases/data/v-1.5.18/reviewed/human_protein_canonicalsequences.fasta\n Output Subdomain\n Name: human_protein_glycosylation_motifs.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.5.18/reviewed/human_protein_glycosylation_motifs.csv\n Name: human_protein_glycosylation_motifs.stat.csv\n URI: http://data.glygen.org/ln2data/releases/data/v-1.5.18/reviewed/human_protein_glycosylation_motifs.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: \"15453\"\n Name: \"end_pos\"\n Description: \"End position of the gene on the chromosome\"\n Unique Values: \"3805\"\n Name: \"motif\"\n Description: \"Glycan motif\"\n Unique Values: \"39\"\n Name: \"start_pos\"\n Description: \"Start position of the gene on the chromosome\"\n Unique Values: \"3805\"", "downloadurl": "/ln2data/releases/data/v-1.5.18/reviewed/human_protein_glycosylation_motifs.csv" }