{ "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" ], [ "Q8TDG4-1", "101", "103", "NDS" ], [ "Q8TDG4-1", "164", "166", "NLT" ], [ "Q8TDG4-1", "176", "178", "NQS" ], [ "Q8TDG4-1", "208", "210", "NSS" ], [ "Q8TDG4-1", "531", "533", "NDT" ], [ "Q8TDG4-1", "577", "579", "NYS" ], [ "Q8TDG4-1", "778", "780", "NGT" ], [ "P30613-1", "6", "8", "NIS" ], [ "P30613-1", "118", "120", "NFS" ], [ "P50213-1", "67", "69", "NVT" ], [ "P50213-1", "194", "196", "NVT" ], [ "Q9BQI5-1", "167", "169", "NLS" ], [ "Q9BQI5-1", "617", "619", "NFS" ], [ "Q9NPB8-1", "44", "46", "NDT" ], [ "Q9NPB8-1", "328", "330", "NST" ], [ "Q9NPB8-1", "472", "474", "NLS" ], [ "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" ], [ "Q9NV96-1", "107", "109", "NFT" ], [ "Q9NV96-1", "180", "182", "NDT" ], [ "Q9NV96-1", "190", "192", "NDS" ], [ "Q9NV96-1", "294", "296", "NVT" ], [ "Q9NV96-1", "352", "354", "NSS" ], [ "Q99687-1", "232", "234", "NSS" ], [ "Q99687-1", "329", "331", "NRT" ], [ "Q969N2-1", "164", "166", "NDT" ], [ "Q969N2-1", "185", "187", "NLT" ], [ "Q969N2-1", "291", "293", "NET" ], [ "Q969N2-1", "327", "329", "NNS" ], [ "P05093-1", "185", "187", "NTS" ], [ "P05093-1", "208", "210", "NLS" ], [ "P05093-1", "226", "228", "NKT" ], [ "A0A1W2PQ27-1", "17", "19", "NRS" ], [ "P14136-1", "303", "305", "NES" ], [ "P09471-1", "142", "144", "NRS" ], [ "P09471-1", "150", "152", "NDS" ], [ "P09471-1", "312", "314", "NRS" ], [ "Q9UNP4-1", "86", "88", "NYT" ], [ "Q9UNP4-1", "236", "238", "NKT" ], [ "Q9UNP4-1", "390", "392", "NVT" ], [ "Q7RTN6-1", "217", "219", "NLS" ], [ "Q7RTN6-1", "293", "295", "NGT" ], [ "Q7RTN6-1", "375", "377", "NHS" ], [ "Q5SRE7-1", "251", "253", "NLS" ], [ "Q2PZI1-1", "333", "335", "NVS" ], [ "Q5VT40-1", "117", "119", "NTT" ], [ "Q5VT40-1", "177", "179", "NTT" ], [ "O94887-1", "266", "268", "NWS" ], [ "O94887-1", "906", "908", "NTT" ], [ "O94887-1", "916", "918", "NTS" ], [ "O95672-1", "255", "257", "NSS" ], [ "O95672-1", "322", "324", "NIT" ], [ "O95672-1", "656", "658", "NFT" ], [ "Q9Y448-1", "56", "58", "NES" ], [ "Q9Y448-1", "263", "265", "NET" ], [ "P39023-1", "302", "304", "NAS" ], [ "Q8TC84-1", "166", "168", "NGT" ], [ "Q8TC84-1", "174", "176", "NGS" ], [ "Q13241-1", "83", "85", "NES" ], [ "Q13241-1", "132", "134", "NGS" ], [ "Q13283-1", "37", "39", "NSS" ], [ "Q13283-1", "69", "71", "NFT" ], [ "Q12815-1", "422", "424", "NRT" ], [ "Q12815-1", "480", "482", "NAT" ], [ "Q8IZS7-1", "109", "111", "NFS" ], [ "Q8IZS7-1", "140", "142", "NKS" ], [ "Q8IZS7-1", "149", "151", "NNS" ], [ "P68400-1", "58", "60", "NIT" ], [ "P68400-1", "117", "119", "NNT" ], [ "P29122-1", "259", "261", "NNS" ], [ "P29122-1", "914", "916", "NCS" ], [ "P29122-1", "932", "934", "NHT" ], [ "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" ] ] }, "readme": "Name\n - Human N-Glycosylation Sequon\n\nVersion\n - 1.11.2\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], 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 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//ln2releases/data/v-1.11.2/reviewed/human_protein_canonicalsequences.fasta\n Output Subdomain\n Name: human_protein_glycosylation_motifs.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/human_protein_glycosylation_motifs.csv\n Name: human_protein_glycosylation_motifs.stat.csv\n URI: http://data.glygen.org/ln2wwwdata/reviewed/human_protein_glycosylation_motifs.stat.csv", "downloadurl": "/ln2data/releases/data/v-1.12.1/reviewed/human_protein_glycosylation_motifs.csv" }