{
    "bcoid": "GLY_001720",
    "title": "Zebrafish Domains and Regions (UniProtKB)",
    "description": "The Zebrafish domain and regions (UniProtKB) dataset contains Danio rerio [taxid:7955] domains, motifs ...",
    "filename_list": "zebrafish_protein_domains_uniprotkb.csv",
    "filename": "zebrafish_protein_domains_uniprotkb.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Danio rerio"
        ],
        "molecule": [
            "Protein"
        ],
        "tag": [
            "Domains and Regions"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ],
        "file_category": [
            "annotation"
        ]
    },
    "minitable": {
        "content": [
            [
                "A0A0G2KHQ4-1...",
                "Domain_Exten..."
            ],
            [
                "A0A0G2KHQ4-1...",
                "Domain_Exten..."
            ]
        ],
        "headers": [
            "uniprotkb_ca...",
            "ann_type..."
        ],
        "colwidth": [
            "40%",
            "20%"
        ]
    },
    "sampledata": {
        "type": "table",
        "data": [
            [
                {
                    "type": "string",
                    "label": "uniprotkb_canonical_ac"
                },
                {
                    "type": "string",
                    "label": "ann_type"
                },
                {
                    "type": "string",
                    "label": "uniprotkb_annotation"
                },
                {
                    "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": "eco_id"
                },
                {
                    "type": "string",
                    "label": "start_pos"
                },
                {
                    "type": "string",
                    "label": "end_pos"
                },
                {
                    "type": "string",
                    "label": "start_aa"
                },
                {
                    "type": "string",
                    "label": "end_aa"
                },
                {
                    "type": "string",
                    "label": "seq"
                },
                {
                    "type": "string",
                    "label": "glycosite_overlap"
                }
            ],
            [
                "A0A0G2KHQ4-1",
                "Domain_Extent_Annotation",
                "Tyrosine-protein phosphatase",
                "protein_xref_uniprotkb",
                "A0A0G2KHQ4",
                "protein_xref_uniprotkb",
                "A0A0G2KHQ4",
                "ECO_0000259",
                "46",
                "192",
                "Asn",
                "Ser",
                "NHADEVWPRLYIGDQEIASNRKELVKLGITHILNCAQSKWRGGAEYYAGMNITYHGIEAHDSPSFDMSVNFYPAAEFIHRALSAGGTVLVHCAVGVSRSATLVLAYLMIRQNMTLLEAIRTVKDHRGVTPNRGFLRQLSGLDSVLRS",
                ""
            ],
            [
                "A0A0G2KHQ4-1",
                "Domain_Extent_Annotation",
                "Tyrosine-protein phosphatase",
                "protein_xref_prosite",
                "PS50054",
                "protein_xref_uniprotkb",
                "A0A0G2KHQ4",
                "",
                "46",
                "192",
                "Asn",
                "Ser",
                "NHADEVWPRLYIGDQEIASNRKELVKLGITHILNCAQSKWRGGAEYYAGMNITYHGIEAHDSPSFDMSVNFYPAAEFIHRALSAGGTVLVHCAVGVSRSATLVLAYLMIRQNMTLLEAIRTVKDHRGVTPNRGFLRQLSGLDSVLRS",
                ""
            ]
        ]
    },
    "readme": "Name\n   - Zebrafish Domains and Regions (UniProtKB)\n\nVersion\n   - v-2.12.1\n\nCreated on\n  - \n\nModified on\n   - \n\nCreated by\n   - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Urnisha Bhuiyan [sbhuiyan28@email.gwu.edu], Kate Warner [k.warner1@gwu.edu]\n\nAuthors\n   - \n\nChecksum\n   - \n\nUsability Domain\n   - The Zebrafish domain and regions (UniProtKB) dataset contains Danio rerio [taxid:7955] domains, motifs and DNA binding data for UniProtKB canonical proteins, and any overlapping glycosylation sites provided in GlyGen. If you use this dataset please give proper attribution to UniProtKB and GlyGen.\n\nDescription Domain\n   Keywords\n   - domains\n   - motifs\n   - regions\n   - DNA binding\n\n   Pipeline Steps\n   - Step-1: The script extracts the domain, motif and nucleotide binding data from their annotation triples in the UniProtKB triplestore, then maps the data to the UniProtKB canonical sequences. The extracted region of the protein is then parsed against glycosylation site data in GlyGen to see if the region contains a glycosylation site, if so the glycosite/s are added to the dataset. The extracted data to generate the dataset in a csv format.\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: aadict.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/misc/aadict.csv\n   Output Subdomain\n      Name: zebrafish_protein_domains_uniprotkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/zebrafish_protein_domains_uniprotkb.csv\n      Name: zebrafish_protein_domains_uniprotkb.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/zebrafish_protein_domains_uniprotkb.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\"\n     Description: \"\"\n      Unique Values: \"15048\"",
    "downloadurl": "/ln2data/releases/data/v-2.12.1/reviewed/zebrafish_protein_domains_uniprotkb.csv"
}