{
    "bcoid": "GLY_000421",
    "title": "SARS-CoV1 Protein Function (UniProtKB)",
    "description": "The SARS coronavirus (SARS-CoV-1) Protein Function (UniProtKB) dataset contains biological function annotation ...",
    "filename_list": "sarscov1_protein_function_uniprotkb.csv",
    "filename": "sarscov1_protein_function_uniprotkb.csv",
    "filetype": "csv",
    "categories": {
        "species": [
            "Severe acute respiratory syndrome-related coronavirus"
        ],
        "molecule": [
            "Protein"
        ],
        "tag": [
            "Protein Function"
        ],
        "file_type": [
            "csv"
        ],
        "status": [
            "Reviewed"
        ],
        "scope": [
            "internal"
        ],
        "file_category": [
            "annotation"
        ]
    },
    "minitable": {
        "content": [
            [
                "P0C6U8-1...",
                "protein_xref..."
            ],
            [
                "P0C6U8-1...",
                "protein_xref..."
            ]
        ],
        "headers": [
            "uniprotkb_ca...",
            "xref_key..."
        ],
        "colwidth": [
            "40%",
            "20%"
        ]
    },
    "sampledata": {
        "type": "table",
        "data": [
            [
                {
                    "type": "string",
                    "label": "uniprotkb_canonical_ac"
                },
                {
                    "type": "string",
                    "label": "xref_key"
                },
                {
                    "type": "string",
                    "label": "xref_id"
                },
                {
                    "type": "string",
                    "label": "annotation"
                }
            ],
            [
                "P0C6U8-1",
                "protein_xref_uniprotkb_fun",
                "P0C6U8",
                "Responsible for the cleavages located at the N-terminus of the replicase polyprotein. In addition, PL-PRO possesses a deubiquitinating/deISGylating activity and processes both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains from cellular substrates (PubMed:17692280). Contains an ADP-ribose hydrolase activity that binds ADP-ribose and catalyzes the removal of mono-ADP-ribose (de-MARylation), usually bound to a glutamate or aspartate (By similarity). ADP-ribose hydrolase activity allows the virus to interfere with the host immune defenses involving poly-ADP-ribose polymerases (PARPs) (Probable). Plays a role in host membrane rearrangement that leads to creation of cytoplasmic double-membrane vesicles (DMV) necessary for viral replication (PubMed:23943763). Nsp3, nsp4 and nsp6 together are sufficient to form DMV (PubMed:23943763, PubMed:24410069). Antagonizes innate immune induction of type I interferon by blocking the phosphorylation, dimerization and subsequent nuclear translocation of host IRF3 (PubMed:19369340, PubMed:24622840). Also prevents host NF-kappa-B signaling (PubMed:19369340, PubMed:24622840)."
            ],
            [
                "P0C6U8-1",
                "protein_xref_pubmed",
                "17692280",
                "Responsible for the cleavages located at the N-terminus of the replicase polyprotein. In addition, PL-PRO possesses a deubiquitinating/deISGylating activity and processes both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains from cellular substrates (PubMed:17692280). Contains an ADP-ribose hydrolase activity that binds ADP-ribose and catalyzes the removal of mono-ADP-ribose (de-MARylation), usually bound to a glutamate or aspartate (By similarity). ADP-ribose hydrolase activity allows the virus to interfere with the host immune defenses involving poly-ADP-ribose polymerases (PARPs) (Probable). Plays a role in host membrane rearrangement that leads to creation of cytoplasmic double-membrane vesicles (DMV) necessary for viral replication (PubMed:23943763). Nsp3, nsp4 and nsp6 together are sufficient to form DMV (PubMed:23943763, PubMed:24410069). Antagonizes innate immune induction of type I interferon by blocking the phosphorylation, dimerization and subsequent nuclear translocation of host IRF3 (PubMed:19369340, PubMed:24622840). Also prevents host NF-kappa-B signaling (PubMed:19369340, PubMed:24622840)."
            ]
        ]
    },
    "readme": "Name\n   - SARS-CoV1 Protein Function (UniProtKB)\n\nVersion\n   - v-2.12.1\n\nCreated on\n  - 2020-04-02T23:52:06.244702\n\nModified on\n   - 2024-06-03T21:11:46.533Z\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 SARS coronavirus (SARS-CoV-1) Protein Function (UniProtKB) dataset contains biological function annotation for Severe acute respiratory syndrome-related coronavirus [taxid:694009] protein accesions from the UniProtKB database. If you use this dataset please provide proper attribution to EMBL-EBI-UniProtKB and GlyGen.\n\nDescription Domain\n   Keywords\n   - protein function\n   - UniProtKB\n\n   Pipeline Steps\n   - Step-1: The script loads the UniProtKB function annotations triplestore containing triples from nt file 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-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: all_blacklisted_pmids.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/compiled/all_blacklisted_pmids.csv\n      Name: uniprot-proteome-sars-coronavirus.nt\n      URI: https:/data.glygen.org/ln2downloads/ebi/2026_06_13/uniprot-proteome-sars-coronavirus.nt\n   Output Subdomain\n      Name: sarscov1_protein_function_uniprotkb.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/sarscov1_protein_function_uniprotkb.csv\n      Name: sarscov1_protein_function_uniprotkb.stat.csv\n      URI: https:/data.glygen.org/ln2releases/data/v-2.12.1/reviewed/sarscov1_protein_function_uniprotkb.stat.csv\n\nFields\n      Name: \"uniprotkb_canonical_ac\"\"\n     Description: \"\"\n      Unique Values: \"12\"",
    "downloadurl": "/ln2data/releases/data/v-2.12.1/reviewed/sarscov1_protein_function_uniprotkb.csv"
}