{
    "bcoid": "GLY_001199",
    "title": "Bovine GlyGen-PDB Cross References Mapping",
    "description": "The Bovine GlyGen-PDB Cross References dataset contains Bos taurus [taxid:9913] UniProtKB accessions ...",
    "filename_list": "bovine_protein_pdb_map.csv",
    "filename": "bovine_protein_pdb_map.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Bos taurus"
        ],
        "molecule": [
            "Protein"
        ],
        "tag": [
            "GlyGen-PDB Cross References Mapping"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ]
    },
    "minitable": {
        "content": [
            [
                "P11180-1...",
                "region_1..."
            ],
            [
                "P61085-1...",
                "region_1..."
            ]
        ],
        "headers": [
            "uniprotkb_ca...",
            "sequence_reg..."
        ],
        "colwidth": [
            "40%",
            "20%"
        ]
    },
    "sampledata": {
        "type": "table",
        "data": [
            [
                {
                    "type": "string",
                    "label": "uniprotkb_canonical_ac"
                },
                {
                    "type": "string",
                    "label": "sequence_region"
                },
                {
                    "type": "string",
                    "label": "pdb_id"
                },
                {
                    "type": "string",
                    "label": "pdb_chain"
                },
                {
                    "type": "string",
                    "label": "start_pos"
                },
                {
                    "type": "string",
                    "label": "end_pos"
                },
                {
                    "type": "string",
                    "label": "overlap_ratio"
                },
                {
                    "type": "string",
                    "label": "overlap_category"
                },
                {
                    "type": "string",
                    "label": "experimental_method"
                },
                {
                    "type": "string",
                    "label": "resolution"
                },
                {
                    "type": "string",
                    "label": "selection_flag"
                }
            ],
            [
                "P11180-1",
                "region_1",
                "7uom",
                "01/02/03/04/05/0z/1a/1b/1c/1d/1e/1f/1g/1h/1i/1j/1k/1l/1m/1n/1o/1p/1q/1r/1s/1t/1u/1v/1w/1x",
                "1",
                "647",
                "1.0",
                "0.75",
                "Electron_Microscopy",
                "3.8",
                "True"
            ],
            [
                "P61085-1",
                "region_1",
                "2bep",
                "a",
                "1",
                "155",
                "1.0",
                "0.75",
                "X-Ray_Crystallography",
                "1.8",
                "True"
            ]
        ]
    },
    "readme": "Name\n   - Bovine GlyGen-PDB Cross References Mapping\n\nVersion\n   - v-2.8.1\n\nModified on\n   - 2024-10-31T15:33:01.404Z\n\nCreated by\n   - Jeet Vora [jeetvora@gwu.edu], Robel Kahsay [rykahsay@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Luke Johnson [luke.johnson@email.gwu.edu], Urnisha Bhuiyan [sbhuiyan28@email.gwu.edu], Cyrus Au-Yeung [cyruschauyeung@gwu.edu], Kate Warner [k.warner1@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 Bovine GlyGen-PDB Cross References dataset contains Bos taurus [taxid:9913] UniProtKB accessions mapped to PDB accessions for the purpose of PDB to GlyGen cross references. If you use this dataset please provide proper attribution to UniProtKB, PDB and GlyGen.\n\nDescription Domain\n   Keywords\n   - UniProtKB\n   - GlyGen\n   - PDB\n   - crossreferences\n\n   Pipeline Steps\n   - Step-1: The script loads the UniProtKB canonical accessions, maps them to PDB database accessions/identifiers, 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-species-agnostic-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: bovine_protein_xref_alphafolddb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.8.1/reviewed/bovine_protein_xref_alphafolddb.csv\n   Output Subdomain\n      Name: bovine_protein_pdb_map.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.8.1/reviewed/bovine_protein_pdb_map.csv\n      Name: bovine_protein_pdb_map.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.8.1/reviewed/bovine_protein_pdb_map.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\n     Description: \"\"\n      Unique Values: \"15282\"\n      Name: \"sequence_region\"\n     Description: \"\"\n      Unique Values: \"6\"\n      Name: \"pdb_id\"\n     Description: \"PDB ID associated with the UniProtKB accession.\"\n      Unique Values: \"18962\"\n      Name: \"pdb_chain\"\n     Description: \"\"\n      Unique Values: \"486\"\n      Name: \"start_pos\"\n     Description: \"Start position of the gene on the chromosome\"\n      Unique Values: \"208\"\n      Name: \"end_pos\"\n     Description: \"End position of the gene on the chromosome\"\n      Unique Values: \"1380\"\n      Name: \"overlap_ratio\"\n     Description: \"\"\n      Unique Values: \"92\"\n      Name: \"overlap_category\"\n     Description: \"\"\n      Unique Values: \"5\"\n      Name: \"experimental_method\"\n     Description: \"\"\n      Unique Values: \"5\"\n      Name: \"resolution\"\n     Description: \"\"\n      Unique Values: \"365\"\n      Name: \"selection_flag\"\n     Description: \"\"\n      Unique Values: \"2\"",
    "downloadurl": "/ln2data/releases/data/v-2.8.1/reviewed/bovine_protein_pdb_map.csv"
}