[ { "title": "Geometry of a complex formed by double strand break repair proteins at a single DNA end: recruitment of DNA-PKcs induces inward translocation of Ku protein.", "journal": "Nucleic acids research", "date": "1999", "authors": "Yoo S, Dynan WS", "reference": { "type": "PubMed", "id": "10572166", "url": "https://pubmed.ncbi.nlm.nih.gov/10572166" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZW49-6", "protein_name": "PAX-interacting protein 1", "gene_name": "PAXIP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UGP5-1", "protein_name": "DNA polymerase lambda", "gene_name": "POLL", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NP87-1", "protein_name": "DNA-directed DNA/RNA polymerase mu", "gene_name": "POLM", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q5UIP0-1", "protein_name": "Telomere-associated protein RIF1", "gene_name": "RIF1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NUW8-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 1", "gene_name": "TDP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95551-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 2", "gene_name": "TDP2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13426-1", "protein_name": "DNA repair protein XRCC4", "gene_name": "XRCC4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49917-1", "protein_name": "DNA ligase 4", "gene_name": "LIG4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P13010-1", "protein_name": "DNA repair protein Ku80", "gene_name": "XRCC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.10572166", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 51 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 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"glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Ku recruits the XRCC4-ligase IV complex to DNA ends.", "journal": "Molecular and cellular biology", "date": "2000", "authors": "Nick McElhinny SA, Snowden CM, McCarville J, Ramsden DA", "reference": { "type": "PubMed", "id": "10757784", "url": "https://pubmed.ncbi.nlm.nih.gov/10757784" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZW49-6", "protein_name": "PAX-interacting protein 1", "gene_name": "PAXIP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UGP5-1", "protein_name": "DNA polymerase lambda", "gene_name": "POLL", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NP87-1", "protein_name": "DNA-directed DNA/RNA polymerase mu", "gene_name": "POLM", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q90YB1-1", "protein_name": "DNA ligase 4", "gene_name": "LIG4", "tax_name": "Chicken" }, { "uniprot_canonical_ac": "Q5UIP0-1", "protein_name": "Telomere-associated protein RIF1", "gene_name": "RIF1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NUW8-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 1", "gene_name": "TDP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95551-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 2", "gene_name": 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"Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "O93257-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Chicken" }, { "uniprot_canonical_ac": "Q8QGX4-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Chicken" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.10757784", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 54 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { 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1", "gene_name": "UBXN1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92560-1", "protein_name": "Ubiquitin carboxyl-terminal hydrolase BAP1", "gene_name": "BAP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O94953-1", "protein_name": "Lysine-specific demethylase 4B", "gene_name": "KDM4B", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", 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{ "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "O75164-1", "protein_name": "Lysine-specific demethylase 4A", "gene_name": "KDM4A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": "Protein phosphatase EYA4", "gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00213-1", "protein_name": "Amyloid beta precursor protein binding family B member 1", "gene_name": "APBB1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P00519-1", "protein_name": "Tyrosine-protein kinase ABL1", "gene_name": "ABL1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG48-1", "protein_name": "Polyubiquitin-C", "gene_name": "UBC", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96017-1", "protein_name": "Serine/threonine-protein kinase Chk2", "gene_name": "CHEK2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04637-1", "protein_name": "Cellular tumor antigen p53", "gene_name": "TP53", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "phosphorylation": [ { "start_pos": 68, "end_pos": 68, "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q92903", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q92903" }, { "database": "PubMed", "id": "11025670", "url": "https://pubmed.ncbi.nlm.nih.gov/11025670" }, { "database": "PubMed", "id": "11096068", "url": "https://pubmed.ncbi.nlm.nih.gov/11096068" }, { "database": "PubMed", "id": "11390408", "url": "https://pubmed.ncbi.nlm.nih.gov/11390408" } ], "site_lbl": "Thr68", "uniprot_canonical_ac": "Q92903-1" } ], "record_id": "pubmed.11025670", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 61 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 } ], "sort_fields": [ "start_pos", "end_pos", "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl", "uniprot_canonical_ac" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Functional interactions between BRCA1 and the checkpoint kinase ATR during genotoxic stress.", "journal": "Genes & development", "date": "2000", "authors": "Tibbetts RS, Cortez D, Brumbaugh KM, Scully R, Livingston D, Elledge SJ, Abraham RT", "reference": { "type": "PubMed", "id": "11114888", "url": "https://pubmed.ncbi.nlm.nih.gov/11114888" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q04323-1", "protein_name": "UBX domain-containing protein 1", "gene_name": "UBXN1", "tax_name": "Human" }, { 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"count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Structure of the Ku heterodimer bound to DNA and its implications for double-strand break repair.", "journal": "Nature", "date": "2001", "authors": "Walker JR, Corpina RA, Goldberg J", "reference": { "type": "PubMed", "id": "11493912", "url": "https://pubmed.ncbi.nlm.nih.gov/11493912" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone 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"tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": 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"uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00167-1", "protein_name": "Protein phosphatase EYA2", "gene_name": "EYA2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99504-1", "protein_name": "Protein phosphatase EYA3", "gene_name": "EYA3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P45983-1", "protein_name": "Mitogen-activated protein kinase 8", "gene_name": "MAPK8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60264-1", "protein_name": "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5", "gene_name": "SMARCA5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": 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"title": "Structure of a BRCA1-BARD1 heterodimeric RING-RING complex.", "journal": "Nature structural biology", "date": "2001", "authors": "Brzovic PS, Rajagopal P, Hoyt DW, King MC, Klevit RE", "reference": { "type": "PubMed", "id": "11573085", "url": "https://pubmed.ncbi.nlm.nih.gov/11573085" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q04323-1", "protein_name": "UBX domain-containing protein 1", "gene_name": "UBXN1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92560-1", "protein_name": "Ubiquitin carboxyl-terminal hydrolase BAP1", "gene_name": "BAP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O94953-1", "protein_name": "Lysine-specific demethylase 4B", "gene_name": "KDM4B", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "P53041-1", "protein_name": "Serine/threonine-protein phosphatase 5", "gene_name": "PPP5C", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63279-1", "protein_name": "SUMO-conjugating enzyme UBC9", "gene_name": "UBE2I", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63165-1", "protein_name": "Small ubiquitin-related modifier 1", "gene_name": "SUMO1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00167-1", "protein_name": "Protein phosphatase EYA2", "gene_name": "EYA2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99504-1", "protein_name": "Protein phosphatase EYA3", "gene_name": "EYA3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P45983-1", "protein_name": "Mitogen-activated protein kinase 8", "gene_name": "MAPK8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60264-1", "protein_name": "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5", "gene_name": "SMARCA5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": 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"tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "O75164-1", "protein_name": "Lysine-specific demethylase 4A", "gene_name": "KDM4A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": "Protein phosphatase EYA4", "gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": 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"tax_name": "Human" }, { "uniprot_canonical_ac": "O96017-1", "protein_name": "Serine/threonine-protein kinase Chk2", "gene_name": "CHEK2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04637-1", "protein_name": "Cellular tumor antigen p53", "gene_name": "TP53", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.11573085", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 60 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Computational approach for determining the spectrum of DNA damage induced by ionizing radiation.", "journal": "Radiation research", "date": "2001", "authors": "Nikjoo H, O'Neill P, Wilson WE, Goodhead DT", "reference": { "type": "PubMed", "id": "11604075", "url": "https://pubmed.ncbi.nlm.nih.gov/11604075" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZW49-6", "protein_name": "PAX-interacting protein 1", "gene_name": "PAXIP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UGP5-1", "protein_name": "DNA polymerase lambda", "gene_name": "POLL", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NP87-1", "protein_name": "DNA-directed DNA/RNA polymerase mu", "gene_name": "POLM", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q5UIP0-1", "protein_name": "Telomere-associated protein RIF1", "gene_name": "RIF1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NUW8-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 1", "gene_name": "TDP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95551-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 2", "gene_name": "TDP2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13426-1", "protein_name": "DNA repair protein XRCC4", "gene_name": "XRCC4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49917-1", "protein_name": "DNA ligase 4", "gene_name": "LIG4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P13010-1", "protein_name": "DNA repair protein Ku80", "gene_name": "XRCC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.11604075", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 51 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Crystal structure of an Xrcc4-DNA ligase IV complex.", "journal": "Nature structural biology", "date": "2001", "authors": "Sibanda BL, Critchlow SE, Begun J, Pei XY, Jackson SP, Blundell TL, Pellegrini L", "reference": { "type": "PubMed", "id": "11702069", "url": "https://pubmed.ncbi.nlm.nih.gov/11702069" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZW49-6", "protein_name": "PAX-interacting protein 1", "gene_name": "PAXIP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UGP5-1", "protein_name": "DNA polymerase lambda", "gene_name": "POLL", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NP87-1", "protein_name": "DNA-directed DNA/RNA polymerase mu", "gene_name": "POLM", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q5UIP0-1", "protein_name": "Telomere-associated protein RIF1", "gene_name": "RIF1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NUW8-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 1", "gene_name": "TDP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95551-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 2", "gene_name": "TDP2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13426-1", "protein_name": "DNA repair protein XRCC4", "gene_name": "XRCC4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49917-1", "protein_name": "DNA ligase 4", "gene_name": "LIG4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P13010-1", "protein_name": "DNA repair protein Ku80", "gene_name": "XRCC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.11702069", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 51 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 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"total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Histone H2A variants H2AX and H2AZ.", "journal": "Current opinion in genetics & development", "date": "2002", "authors": "Redon C, Pilch D, Rogakou E, Sedelnikova O, Newrock K, Bonner W", "reference": { "type": "PubMed", "id": "11893489", "url": "https://pubmed.ncbi.nlm.nih.gov/11893489" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q04323-1", "protein_name": "UBX domain-containing protein 1", "gene_name": "UBXN1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92560-1", "protein_name": "Ubiquitin carboxyl-terminal hydrolase BAP1", "gene_name": "BAP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O94953-1", "protein_name": 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"BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UIG0-1", "protein_name": "Tyrosine-protein kinase BAZ1B", "gene_name": "BAZ1B", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "O75164-1", "protein_name": "Lysine-specific demethylase 4A", "gene_name": "KDM4A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": "Protein phosphatase EYA4", "gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", 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"o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Autoubiquitination of the BRCA1*BARD1 RING ubiquitin ligase.", "journal": "The Journal of biological chemistry", "date": "2002", "authors": "Chen A, Kleiman FE, Manley JL, Ouchi T, Pan ZQ", "reference": { "type": "PubMed", "id": "11927591", "url": "https://pubmed.ncbi.nlm.nih.gov/11927591" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q04323-1", "protein_name": "UBX domain-containing protein 1", "gene_name": "UBXN1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92560-1", "protein_name": "Ubiquitin carboxyl-terminal hydrolase BAP1", "gene_name": "BAP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O94953-1", "protein_name": "Lysine-specific demethylase 4B", "gene_name": "KDM4B", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "P53041-1", "protein_name": "Serine/threonine-protein phosphatase 5", "gene_name": "PPP5C", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63279-1", "protein_name": "SUMO-conjugating enzyme UBC9", "gene_name": "UBE2I", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63165-1", "protein_name": "Small ubiquitin-related modifier 1", "gene_name": "SUMO1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00167-1", "protein_name": "Protein phosphatase EYA2", "gene_name": "EYA2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99504-1", "protein_name": "Protein phosphatase EYA3", "gene_name": "EYA3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P45983-1", "protein_name": "Mitogen-activated protein kinase 8", "gene_name": "MAPK8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60264-1", "protein_name": "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5", "gene_name": "SMARCA5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62979-1", "protein_name": "Ubiquitin-ribosomal protein eS31 fusion protein", "gene_name": "RPS27A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UIG0-1", "protein_name": "Tyrosine-protein kinase BAZ1B", "gene_name": "BAZ1B", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "O75164-1", "protein_name": "Lysine-specific demethylase 4A", "gene_name": "KDM4A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": "Protein phosphatase EYA4", "gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00213-1", "protein_name": "Amyloid beta precursor protein binding family B member 1", "gene_name": "APBB1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P00519-1", "protein_name": "Tyrosine-protein kinase ABL1", "gene_name": "ABL1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG48-1", "protein_name": "Polyubiquitin-C", "gene_name": "UBC", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96017-1", "protein_name": "Serine/threonine-protein kinase Chk2", "gene_name": "CHEK2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04637-1", "protein_name": "Cellular tumor antigen p53", "gene_name": "TP53", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.11927591", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 60 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { 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"referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P27661-1", "protein_name": "Histone H2AX", "gene_name": "H2ax", "tax_name": "Mouse" }, { "uniprot_canonical_ac": "Q04323-1", "protein_name": "UBX domain-containing protein 1", "gene_name": "UBXN1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92560-1", "protein_name": "Ubiquitin carboxyl-terminal hydrolase BAP1", "gene_name": "BAP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O94953-1", "protein_name": 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"gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00213-1", "protein_name": "Amyloid beta precursor protein binding family B member 1", "gene_name": "APBB1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P00519-1", "protein_name": "Tyrosine-protein kinase ABL1", "gene_name": "ABL1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG48-1", "protein_name": "Polyubiquitin-C", "gene_name": "UBC", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96017-1", "protein_name": "Serine/threonine-protein kinase Chk2", "gene_name": "CHEK2", "tax_name": "Human" }, { 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"tax_name": "Human" }, { "uniprot_canonical_ac": "Q13426-1", "protein_name": "DNA repair protein XRCC4", "gene_name": "XRCC4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49917-1", "protein_name": "DNA ligase 4", "gene_name": "LIG4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P13010-1", "protein_name": "DNA repair protein Ku80", "gene_name": "XRCC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": 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JJ, Zhou T, Lees-Miller SP, Rasouli-Nia A, Povirk LF", "reference": { "type": "PubMed", "id": "12023295", "url": "https://pubmed.ncbi.nlm.nih.gov/12023295" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZW49-6", "protein_name": "PAX-interacting protein 1", "gene_name": "PAXIP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UGP5-1", "protein_name": "DNA polymerase lambda", "gene_name": "POLL", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NP87-1", "protein_name": "DNA-directed DNA/RNA polymerase mu", "gene_name": "POLM", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q5UIP0-1", "protein_name": "Telomere-associated protein RIF1", "gene_name": "RIF1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NUW8-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 1", "gene_name": "TDP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95551-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 2", "gene_name": "TDP2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13426-1", "protein_name": "DNA repair protein XRCC4", "gene_name": "XRCC4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49917-1", "protein_name": "DNA ligase 4", "gene_name": "LIG4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P13010-1", "protein_name": "DNA repair protein Ku80", "gene_name": "XRCC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.12023295", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 51 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Association of DNA polymerase mu (pol mu) with Ku and ligase IV: role for pol mu in end-joining double-strand break repair.", "journal": "Molecular and cellular biology", "date": "2002", "authors": "Mahajan KN, Nick McElhinny SA, Mitchell BS, Ramsden DA", "reference": { "type": "PubMed", "id": "12077346", "url": "https://pubmed.ncbi.nlm.nih.gov/12077346" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZW49-6", "protein_name": "PAX-interacting protein 1", "gene_name": "PAXIP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UGP5-1", "protein_name": "DNA polymerase lambda", "gene_name": "POLL", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NP87-1", "protein_name": "DNA-directed DNA/RNA polymerase mu", "gene_name": "POLM", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q5UIP0-1", "protein_name": "Telomere-associated protein RIF1", "gene_name": "RIF1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NUW8-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 1", "gene_name": "TDP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95551-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 2", "gene_name": "TDP2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13426-1", "protein_name": "DNA repair protein XRCC4", "gene_name": "XRCC4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49917-1", "protein_name": "DNA ligase 4", "gene_name": "LIG4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P13010-1", "protein_name": "DNA repair protein Ku80", "gene_name": "XRCC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", 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"count": 0 } ], "sort_fields": [] } ] }, { "title": "Tip60 acetyltransferase activity is controlled by phosphorylation.", "journal": "The Journal of biological chemistry", "date": "2003", "authors": "Lemercier C, Legube G, Caron C, Louwagie M, Garin J, Trouche D, Khochbin S", "reference": { "type": "PubMed", "id": "12468530", "url": "https://pubmed.ncbi.nlm.nih.gov/12468530" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "mutagenesis": [ { "start_pos": 254, "end_pos": 254, "sequence_org": "L", "sequence_mut": "A", "comment": "Does not affect phosphorylation; when associated with A-257.", 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"uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "O93257-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Chicken" }, { "uniprot_canonical_ac": "Q8QGX4-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Chicken" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.12509254", "abstract": "", "glycosylation": [], 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Biol. Chem.", "date": "2003", "authors": "Xiao Hui, Chung Jin, Kao Hung-Ying, Yang Yu-Chung", "reference": { "type": "PubMed", "id": "12551922", "url": "https://pubmed.ncbi.nlm.nih.gov/12551922" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8WUI4-1", "protein_name": "Histone deacetylase 7", "gene_name": "HDAC7", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.12551922", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { 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"gene_name": "SUMO1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00167-1", "protein_name": "Protein phosphatase EYA2", "gene_name": "EYA2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99504-1", "protein_name": "Protein phosphatase EYA3", "gene_name": "EYA3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P45983-1", "protein_name": "Mitogen-activated protein kinase 8", "gene_name": "MAPK8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60264-1", "protein_name": "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5", "gene_name": "SMARCA5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex 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"uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": "Protein phosphatase EYA4", "gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 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"uniprot_canonical_ac": "P0CG48-1", "protein_name": "Polyubiquitin-C", "gene_name": "UBC", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96017-1", "protein_name": "Serine/threonine-protein kinase Chk2", "gene_name": "CHEK2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04637-1", "protein_name": "Cellular tumor antigen p53", "gene_name": "TP53", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.12792649", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": 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"protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62979-1", "protein_name": "Ubiquitin-ribosomal protein eS31 fusion protein", "gene_name": "RPS27A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UIG0-1", "protein_name": "Tyrosine-protein kinase BAZ1B", "gene_name": "BAZ1B", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", 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"Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": "Protein phosphatase EYA4", "gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00213-1", "protein_name": "Amyloid beta precursor protein binding family B member 1", "gene_name": "APBB1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P00519-1", "protein_name": "Tyrosine-protein kinase ABL1", "gene_name": "ABL1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG48-1", "protein_name": "Polyubiquitin-C", "gene_name": "UBC", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96017-1", "protein_name": "Serine/threonine-protein kinase Chk2", "gene_name": "CHEK2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04637-1", "protein_name": "Cellular tumor antigen p53", "gene_name": "TP53", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.12832489", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 60 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "The BRCA1/BARD1 heterodimer assembles polyubiquitin chains through an unconventional linkage involving lysine residue K6 of ubiquitin.", "journal": "The Journal of biological chemistry", "date": "2003", "authors": "Wu-Baer F, Lagrazon K, Yuan W, Baer R", "reference": { "type": "PubMed", "id": "12890688", "url": "https://pubmed.ncbi.nlm.nih.gov/12890688" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q04323-1", "protein_name": "UBX domain-containing protein 1", "gene_name": "UBXN1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92560-1", "protein_name": "Ubiquitin carboxyl-terminal hydrolase BAP1", "gene_name": "BAP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O94953-1", "protein_name": "Lysine-specific demethylase 4B", "gene_name": "KDM4B", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "P53041-1", "protein_name": "Serine/threonine-protein phosphatase 5", "gene_name": "PPP5C", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63279-1", "protein_name": "SUMO-conjugating enzyme UBC9", "gene_name": "UBE2I", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63165-1", "protein_name": "Small ubiquitin-related modifier 1", "gene_name": "SUMO1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00167-1", "protein_name": "Protein phosphatase EYA2", "gene_name": "EYA2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99504-1", "protein_name": "Protein phosphatase EYA3", "gene_name": "EYA3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P45983-1", "protein_name": "Mitogen-activated protein kinase 8", "gene_name": "MAPK8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60264-1", "protein_name": "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5", "gene_name": "SMARCA5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62979-1", "protein_name": "Ubiquitin-ribosomal protein eS31 fusion protein", "gene_name": "RPS27A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UIG0-1", "protein_name": "Tyrosine-protein kinase BAZ1B", "gene_name": "BAZ1B", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "O75164-1", "protein_name": "Lysine-specific demethylase 4A", "gene_name": "KDM4A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": "Protein phosphatase EYA4", "gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00213-1", "protein_name": "Amyloid beta precursor protein binding family B member 1", "gene_name": "APBB1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P00519-1", "protein_name": "Tyrosine-protein kinase ABL1", "gene_name": "ABL1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG48-1", "protein_name": "Polyubiquitin-C", "gene_name": "UBC", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96017-1", "protein_name": "Serine/threonine-protein kinase Chk2", "gene_name": "CHEK2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04637-1", "protein_name": "Cellular tumor antigen p53", "gene_name": "TP53", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.12890688", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 60 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Autophosphorylation of the catalytic subunit of the DNA-dependent protein kinase is required for efficient end processing during DNA double-strand break repair.", "journal": "Molecular and cellular biology", "date": "2003", "authors": "Ding Q, Reddy YV, Wang W, Woods T, Douglas P, Ramsden DA, Lees-Miller SP, Meek K", "reference": { "type": "PubMed", "id": "12897153", "url": "https://pubmed.ncbi.nlm.nih.gov/12897153" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair 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"Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NUW8-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 1", "gene_name": "TDP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95551-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 2", "gene_name": "TDP2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13426-1", "protein_name": "DNA repair protein XRCC4", "gene_name": "XRCC4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49917-1", "protein_name": "DNA ligase 4", "gene_name": "LIG4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P13010-1", "protein_name": "DNA repair protein Ku80", "gene_name": "XRCC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.12897153", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 51 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Regulation and mechanisms of mammalian double-strand break repair.", "journal": "Oncogene", "date": "2003", "authors": "Valerie K, Povirk LF", "reference": { "type": "PubMed", "id": "12947387", "url": "https://pubmed.ncbi.nlm.nih.gov/12947387" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone 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"Q5UIP0-1", "protein_name": "Telomere-associated protein RIF1", "gene_name": "RIF1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NUW8-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 1", "gene_name": "TDP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95551-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 2", "gene_name": "TDP2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13426-1", "protein_name": "DNA repair protein XRCC4", "gene_name": "XRCC4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49917-1", "protein_name": "DNA ligase 4", "gene_name": "LIG4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P13010-1", "protein_name": "DNA repair protein Ku80", "gene_name": "XRCC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.12947387", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 51 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": 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"n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "BARD1 participates with BRCA1 in homology-directed repair of chromosome breaks.", "journal": "Molecular and cellular biology", "date": "2003", "authors": "Westermark UK, Reyngold M, Olshen AB, Baer R, Jasin M, Moynahan ME", "reference": { "type": "PubMed", "id": "14560035", "url": "https://pubmed.ncbi.nlm.nih.gov/14560035" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q04323-1", "protein_name": "UBX domain-containing protein 1", "gene_name": "UBXN1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92560-1", "protein_name": "Ubiquitin carboxyl-terminal hydrolase BAP1", "gene_name": "BAP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O94953-1", "protein_name": "Lysine-specific demethylase 4B", "gene_name": "KDM4B", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "P53041-1", "protein_name": "Serine/threonine-protein phosphatase 5", "gene_name": "PPP5C", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63279-1", "protein_name": "SUMO-conjugating enzyme UBC9", "gene_name": "UBE2I", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63165-1", "protein_name": "Small ubiquitin-related modifier 1", "gene_name": "SUMO1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00167-1", "protein_name": "Protein phosphatase EYA2", "gene_name": "EYA2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99504-1", "protein_name": "Protein phosphatase EYA3", "gene_name": "EYA3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P45983-1", "protein_name": "Mitogen-activated protein kinase 8", "gene_name": "MAPK8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60264-1", "protein_name": "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5", "gene_name": "SMARCA5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62979-1", "protein_name": "Ubiquitin-ribosomal protein eS31 fusion protein", "gene_name": "RPS27A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UIG0-1", "protein_name": "Tyrosine-protein kinase BAZ1B", "gene_name": "BAZ1B", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "O75164-1", "protein_name": "Lysine-specific demethylase 4A", "gene_name": "KDM4A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": "Protein phosphatase EYA4", "gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00213-1", "protein_name": "Amyloid beta precursor protein binding family B member 1", "gene_name": "APBB1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P00519-1", "protein_name": "Tyrosine-protein kinase ABL1", "gene_name": "ABL1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG48-1", "protein_name": "Polyubiquitin-C", "gene_name": "UBC", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96017-1", "protein_name": "Serine/threonine-protein kinase Chk2", "gene_name": "CHEK2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04637-1", "protein_name": "Cellular tumor antigen p53", "gene_name": "TP53", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.14560035", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 60 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": 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"table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Implication of DNA polymerase lambda in alignment-based gap filling for nonhomologous DNA end joining in human nuclear extracts.", "journal": "The Journal of biological chemistry", "date": "2004", "authors": "Lee JW, Blanco L, Zhou T, Garcia-Diaz M, Bebenek K, Kunkel TA, Wang Z, Povirk LF", "reference": { "type": "PubMed", "id": "14561766", "url": "https://pubmed.ncbi.nlm.nih.gov/14561766" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZW49-6", "protein_name": "PAX-interacting protein 1", "gene_name": "PAXIP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UGP5-1", "protein_name": "DNA polymerase lambda", "gene_name": "POLL", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NP87-1", "protein_name": "DNA-directed DNA/RNA polymerase mu", "gene_name": "POLM", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q90YB1-1", "protein_name": "DNA ligase 4", "gene_name": "LIG4", "tax_name": "Chicken" }, { "uniprot_canonical_ac": "Q5UIP0-1", "protein_name": "Telomere-associated protein RIF1", "gene_name": "RIF1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NUW8-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 1", "gene_name": "TDP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95551-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 2", "gene_name": "TDP2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13426-1", "protein_name": "DNA repair protein XRCC4", "gene_name": "XRCC4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49917-1", "protein_name": "DNA ligase 4", "gene_name": "LIG4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P13010-1", "protein_name": "DNA repair protein Ku80", "gene_name": "XRCC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": 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"gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "O93257-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Chicken" }, { "uniprot_canonical_ac": "Q8QGX4-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Chicken" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": 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NuA4 histone acetyltransferase complex from yeast to humans.", "journal": "Molecular and cellular biology", "date": "2004-03", "authors": "Doyon Yannick, Selleck William, Lane William S, Tan Song, C\u00f4t\u00e9 Jacques", "reference": { "type": "PubMed", "id": "14966270", "url": "https://pubmed.ncbi.nlm.nih.gov/14966270" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UBU8-1", "protein_name": "Mortality factor 4-like protein 1", "gene_name": "MORF4L1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H2F5-1", "protein_name": "Enhancer of polycomb homolog 1", "gene_name": "EPC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR8-1", "protein_name": "Inhibitor of growth protein 3", "gene_name": "ING3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15906-1", "protein_name": "Vacuolar protein sorting-associated protein 72 homolog", "gene_name": "VPS72", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZRS2-1", "protein_name": "Chromatin remodeling protein SRCAP", "gene_name": "SRCAP", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NPF5-1", "protein_name": "DNA methyltransferase 1-associated protein 1", "gene_name": "DMAP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9Y265-1", "protein_name": "RuvB-like 1", "gene_name": "RUVBL1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95619-1", "protein_name": "YEATS domain-containing protein 4", "gene_name": "YEATS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9HAF1-1", "protein_name": "Chromatin modification-related protein MEAF6", "gene_name": "MEAF6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9Y4A5-1", "protein_name": "Transformation/transcription domain-associated protein", "gene_name": "TRRAP", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H0E9-1", "protein_name": "Bromodomain-containing protein 8", "gene_name": "BRD8", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9Y230-1", "protein_name": "RuvB-like 2", "gene_name": "RUVBL2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96L91-1", "protein_name": "E1A-binding protein p400", "gene_name": "EP400", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96019-1", "protein_name": "Actin-like protein 6A", "gene_name": "ACTL6A", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.14966270", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 15 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", 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"count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "A large-scale RNAi screen in human cells identifies new components of the p53 pathway.", "journal": "Nature", "date": "2004", "authors": "Berns K, Hijmans EM, Mullenders J, Brummelkamp TR, Velds A, Heimerikx M, Kerkhoven RM, Madiredjo M, Nijkamp W, Weigelt B, Agami R, Ge W, Cavet G, Linsley PS, Beijersbergen RL, Bernards R", "reference": { "type": "PubMed", "id": "15042092", "url": "https://pubmed.ncbi.nlm.nih.gov/15042092" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": 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"field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { 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sites in XRCC4 and effects of mutations at these sites on DNA end joining in a cell-free system.", "journal": "DNA repair", "date": "2004", "authors": "Lee KJ, Jovanovic M, Udayakumar D, Bladen CL, Dynan WS", "reference": { "type": "PubMed", "id": "15177042", "url": "https://pubmed.ncbi.nlm.nih.gov/15177042" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZW49-6", "protein_name": "PAX-interacting protein 1", "gene_name": "PAXIP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" 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Opin. Genet. Dev.", "date": "2004", "authors": "Doyon Yannick, C\u00f4t\u00e9 Jacques", "reference": { "type": "PubMed", "id": "15196461", "url": "https://pubmed.ncbi.nlm.nih.gov/15196461" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UBU8-1", "protein_name": "Mortality factor 4-like protein 1", "gene_name": "MORF4L1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H2F5-1", "protein_name": "Enhancer of polycomb homolog 1", "gene_name": "EPC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR8-1", "protein_name": "Inhibitor of growth protein 3", "gene_name": "ING3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NPF5-1", "protein_name": "DNA methyltransferase 1-associated protein 1", "gene_name": "DMAP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95619-1", "protein_name": "YEATS domain-containing protein 4", 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], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Mdc1 couples DNA double-strand break recognition by Nbs1 with its H2AX-dependent chromatin retention.", "journal": "The EMBO journal", "date": "2004", "authors": "Lukas C, Melander F, Stucki M, Falck J, Bekker-Jensen S, Goldberg M, Lerenthal Y, Jackson SP, Bartek J, Lukas J", "reference": { "type": "PubMed", "id": "15201865", "url": "https://pubmed.ncbi.nlm.nih.gov/15201865" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone 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"uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63165-1", "protein_name": "Small ubiquitin-related modifier 1", "gene_name": "SUMO1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00167-1", "protein_name": "Protein phosphatase EYA2", "gene_name": "EYA2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99504-1", "protein_name": "Protein phosphatase EYA3", "gene_name": "EYA3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P45983-1", "protein_name": "Mitogen-activated protein kinase 8", "gene_name": "MAPK8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60264-1", "protein_name": "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5", "gene_name": "SMARCA5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62979-1", "protein_name": "Ubiquitin-ribosomal protein eS31 fusion protein", "gene_name": "RPS27A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UIG0-1", "protein_name": "Tyrosine-protein kinase BAZ1B", "gene_name": "BAZ1B", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "O75164-1", "protein_name": "Lysine-specific demethylase 4A", "gene_name": "KDM4A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": "Protein phosphatase EYA4", "gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00213-1", "protein_name": "Amyloid beta precursor protein binding family B member 1", "gene_name": "APBB1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P00519-1", "protein_name": "Tyrosine-protein kinase ABL1", "gene_name": "ABL1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG48-1", "protein_name": "Polyubiquitin-C", "gene_name": "UBC", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96017-1", "protein_name": "Serine/threonine-protein kinase Chk2", "gene_name": "CHEK2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04637-1", "protein_name": "Cellular tumor antigen p53", "gene_name": "TP53", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.15201865", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 60 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "H2AX: the histone guardian of the genome.", "journal": "DNA repair", "date": "2004", "authors": "Fernandez-Capetillo O, Lee A, Nussenzweig M, Nussenzweig A", "reference": { "type": "PubMed", "id": "15279782", "url": "https://pubmed.ncbi.nlm.nih.gov/15279782" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q04323-1", "protein_name": "UBX domain-containing protein 1", "gene_name": "UBXN1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92560-1", "protein_name": "Ubiquitin carboxyl-terminal hydrolase 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"P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "P53041-1", "protein_name": "Serine/threonine-protein phosphatase 5", "gene_name": "PPP5C", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63279-1", "protein_name": "SUMO-conjugating enzyme UBC9", "gene_name": "UBE2I", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63165-1", "protein_name": "Small ubiquitin-related modifier 1", "gene_name": "SUMO1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00167-1", "protein_name": "Protein phosphatase EYA2", "gene_name": "EYA2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99504-1", "protein_name": "Protein phosphatase EYA3", "gene_name": "EYA3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P45983-1", "protein_name": "Mitogen-activated protein kinase 8", "gene_name": "MAPK8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60264-1", "protein_name": "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5", "gene_name": "SMARCA5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62979-1", "protein_name": "Ubiquitin-ribosomal protein eS31 fusion protein", "gene_name": "RPS27A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UIG0-1", "protein_name": "Tyrosine-protein kinase BAZ1B", "gene_name": "BAZ1B", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 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"protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": "Protein phosphatase EYA4", "gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": 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"count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "DNA polymerase lambda can elongate on DNA substrates mimicking non-homologous end joining and interact with XRCC4-ligase IV complex.", "journal": "Biochemical and biophysical research communications", "date": "2004", "authors": "Fan W, Wu X", "reference": { "type": "PubMed", "id": "15451442", "url": "https://pubmed.ncbi.nlm.nih.gov/15451442" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZW49-6", "protein_name": "PAX-interacting protein 1", "gene_name": "PAXIP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UGP5-1", "protein_name": "DNA polymerase lambda", "gene_name": "POLL", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NP87-1", "protein_name": "DNA-directed DNA/RNA polymerase mu", "gene_name": "POLM", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q5UIP0-1", "protein_name": "Telomere-associated protein RIF1", "gene_name": "RIF1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { 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"uniprot_canonical_ac": "P49917-1", "protein_name": "DNA ligase 4", "gene_name": "LIG4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P13010-1", "protein_name": "DNA repair protein Ku80", "gene_name": "XRCC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.15451442", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 51 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": 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"table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Phosphorylation of Artemis following irradiation-induced DNA damage.", "journal": "European journal of immunology", "date": "2004", "authors": "Poinsignon C, de Chasseval R, Soubeyrand S, Moshous D, Fischer A, Hache RJ, de Villartay JP", "reference": { "type": "PubMed", "id": "15468306", "url": "https://pubmed.ncbi.nlm.nih.gov/15468306" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair 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"start_pos": 645, "end_pos": 645, "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by ATM", "evidence": [ { "database": "UniProtKB", "id": "Q96SD1", "url": "https://www.uniprot.org/uniprotkb/Q96SD1" }, { "database": "PRO", "id": "Q96SD1", "url": "https://proconsortium.org/cgi-bin/entry_pro?id=Q96SD1" }, { "database": "iPTMnet", "id": "Q96SD1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q96SD1" }, { "database": "PubMed", "id": "15723659", "url": "https://pubmed.ncbi.nlm.nih.gov/15723659" }, { "database": "PubMed", "id": "15468306", "url": "https://pubmed.ncbi.nlm.nih.gov/15468306" } ], "site_lbl": "Ser645", "uniprot_canonical_ac": "Q96SD1-1" } ], "record_id": "pubmed.15468306", "abstract": "", "glycosylation": [], "snv": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 51 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", 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"o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "von Hippel-Lindau partner Jade-1 is a transcriptional co-activator associated with histone acetyltransferase activity.", "journal": "J. Biol. Chem.", "date": "2004", "authors": "Panchenko MV, Zhou MI, Cohen HT", "reference": { "type": "PubMed", "id": "15502158", "url": "https://pubmed.ncbi.nlm.nih.gov/15502158" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6IE81-1", "protein_name": "Protein Jade-1", "gene_name": "JADE1", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.15502158", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": 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"count": 0 } ], "sort_fields": [] } ] }, { "title": "Ataxia-telangiectasia-mutated dependent phosphorylation of Artemis in response to DNA damage.", "journal": "Cancer science", "date": "2005", "authors": "Chen L, Morio T, Minegishi Y, Nakada S, Nagasawa M, Komatsu K, Chessa L, Villa A, Lecis D, Delia D, Mizutani S", "reference": { "type": "PubMed", "id": "15723659", "url": "https://pubmed.ncbi.nlm.nih.gov/15723659" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZW49-6", "protein_name": "PAX-interacting protein 1", "gene_name": "PAXIP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": 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cell response to genotoxic stresses.", "journal": "The EMBO journal", "date": "2005", "authors": "Col E, Caron C, Chable-Bessia C, Legube G, Gazzeri S, Komatsu Y, Yoshida M, Benkirane M, Trouche D, Khochbin S", "reference": { "type": "PubMed", "id": "16001085", "url": "https://pubmed.ncbi.nlm.nih.gov/16001085" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.16001085", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { 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"protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": 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"field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "The DNA-dependent protein kinase catalytic subunit phosphorylation sites in human Artemis.", "journal": "The Journal of biological chemistry", "date": "2005", "authors": "Ma Y, Pannicke U, Lu H, Niewolik D, Schwarz K, Lieber MR", "reference": { "type": "PubMed", "id": "16093244", "url": "https://pubmed.ncbi.nlm.nih.gov/16093244" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZW49-6", "protein_name": "PAX-interacting protein 1", "gene_name": "PAXIP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UGP5-1", "protein_name": "DNA polymerase lambda", "gene_name": "POLL", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NP87-1", "protein_name": "DNA-directed DNA/RNA polymerase mu", "gene_name": "POLM", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q5UIP0-1", "protein_name": "Telomere-associated protein RIF1", "gene_name": "RIF1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NUW8-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 1", "gene_name": "TDP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95551-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 2", "gene_name": "TDP2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase 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"Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": 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"count": 0 } ], "sort_fields": [] } ] }, { "title": "A {gamma}-secretase-independent mechanism of signal transduction by the amyloid precursor protein.", "journal": "The Journal of biological chemistry", "date": "2005", "authors": "Hass MR, Yankner BA", "reference": { "type": "PubMed", "id": "16103124", "url": "https://pubmed.ncbi.nlm.nih.gov/16103124" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "phosphorylation": [ { "start_pos": 86, "end_pos": 86, "kinase_uniprot_canonical_ac": "P06493-1", "kinase_gene_name": "CDK1", "residue": "Ser", "comment": "", "evidence": [ { "database": 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"protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": "Protein phosphatase EYA4", "gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": 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"o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "MDC1 maintains genomic stability by participating in the amplification of ATM-dependent DNA damage signals.", "journal": "Molecular cell", "date": "2006", "authors": "Lou Z, Minter-Dykhouse K, Franco S, Gostissa M, Rivera MA, Celeste A, Manis JP, van Deursen J, Nussenzweig A, Paull TT, Alt FW, Chen J", "reference": { "type": "PubMed", "id": "16427009", "url": "https://pubmed.ncbi.nlm.nih.gov/16427009" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q5PSV9-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "Mdc1", "tax_name": "Mouse" }, { "uniprot_canonical_ac": "Q04323-1", "protein_name": "UBX domain-containing protein 1", "gene_name": "UBXN1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92560-1", "protein_name": "Ubiquitin carboxyl-terminal hydrolase BAP1", "gene_name": "BAP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O94953-1", "protein_name": "Lysine-specific demethylase 4B", "gene_name": "KDM4B", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "P53041-1", "protein_name": "Serine/threonine-protein phosphatase 5", "gene_name": "PPP5C", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63279-1", "protein_name": "SUMO-conjugating enzyme UBC9", "gene_name": "UBE2I", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63165-1", "protein_name": "Small ubiquitin-related modifier 1", "gene_name": "SUMO1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00167-1", "protein_name": "Protein phosphatase 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"BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UIG0-1", "protein_name": "Tyrosine-protein kinase BAZ1B", "gene_name": "BAZ1B", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "O75164-1", "protein_name": "Lysine-specific demethylase 4A", "gene_name": "KDM4A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": "Protein phosphatase EYA4", "gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", 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"uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04637-1", "protein_name": "Cellular tumor antigen p53", "gene_name": "TP53", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.16427009", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 61 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", 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"count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Cernunnos, a novel nonhomologous end-joining factor, is mutated in human immunodeficiency with microcephaly.", "journal": "Cell", "date": "2006", "authors": "Buck D, Malivert L, de Chasseval R, Barraud A, Fondaneche MC, Sanal O, Plebani A, Stephan JL, Hufnagel M, le Deist F, Fischer A, Durandy A, de Villartay JP, Revy P", "reference": { "type": "PubMed", "id": "16439204", "url": "https://pubmed.ncbi.nlm.nih.gov/16439204" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZW49-6", "protein_name": "PAX-interacting protein 1", "gene_name": "PAXIP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UGP5-1", "protein_name": "DNA polymerase lambda", "gene_name": "POLL", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NP87-1", "protein_name": "DNA-directed DNA/RNA polymerase mu", "gene_name": "POLM", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q5UIP0-1", "protein_name": "Telomere-associated protein RIF1", "gene_name": "RIF1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NUW8-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 1", "gene_name": "TDP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95551-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 2", "gene_name": "TDP2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13426-1", "protein_name": "DNA repair protein XRCC4", "gene_name": "XRCC4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49917-1", "protein_name": "DNA ligase 4", "gene_name": "LIG4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P13010-1", "protein_name": "DNA repair protein Ku80", "gene_name": "XRCC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.16439204", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 51 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "XLF interacts with the XRCC4-DNA ligase IV complex to promote DNA nonhomologous end-joining.", "journal": "Cell", "date": "2006", "authors": "Ahnesorg P, Smith P, Jackson SP", "reference": { "type": "PubMed", "id": "16439205", "url": "https://pubmed.ncbi.nlm.nih.gov/16439205" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZW49-6", "protein_name": "PAX-interacting protein 1", "gene_name": "PAXIP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UGP5-1", "protein_name": "DNA polymerase lambda", "gene_name": "POLL", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NP87-1", "protein_name": "DNA-directed DNA/RNA polymerase mu", "gene_name": "POLM", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q5UIP0-1", "protein_name": "Telomere-associated protein RIF1", "gene_name": "RIF1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NUW8-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 1", "gene_name": "TDP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95551-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 2", "gene_name": "TDP2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13426-1", "protein_name": "DNA repair protein XRCC4", "gene_name": "XRCC4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49917-1", "protein_name": "DNA ligase 4", "gene_name": "LIG4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P13010-1", "protein_name": "DNA repair protein Ku80", "gene_name": "XRCC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.16439205", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 51 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": 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"n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Artemis phosphorylated by DNA-dependent protein kinase associates preferentially with discrete regions of chromatin.", "journal": "Journal of molecular biology", "date": "2006", "authors": "Soubeyrand S, Pope L, De Chasseval R, Gosselin D, Dong F, de Villartay JP, Hache RJ", "reference": { "type": "PubMed", "id": "16600297", "url": "https://pubmed.ncbi.nlm.nih.gov/16600297" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZW49-6", "protein_name": "PAX-interacting protein 1", "gene_name": "PAXIP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UGP5-1", "protein_name": "DNA polymerase lambda", "gene_name": "POLL", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NP87-1", "protein_name": 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"uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13426-1", "protein_name": "DNA repair protein XRCC4", "gene_name": "XRCC4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49917-1", "protein_name": "DNA ligase 4", "gene_name": "LIG4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P13010-1", "protein_name": "DNA repair protein Ku80", "gene_name": "XRCC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, 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"database": "iPTMnet", "id": "Q96SD1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q96SD1" }, { "database": "PubMed", "id": "1660029", "url": "https://pubmed.ncbi.nlm.nih.gov/1660029" }, { "database": "PubMed", "id": "16874298", "url": "https://pubmed.ncbi.nlm.nih.gov/16874298" }, { "database": "PubMed", "id": "16600297", "url": "https://pubmed.ncbi.nlm.nih.gov/16600297" } ], "site_lbl": "Ser645", "uniprot_canonical_ac": "Q96SD1-1" } ], "record_id": "pubmed.16600297", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 51 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 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"sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "DNA damage-induced BARD1 phosphorylation is critical for the inhibition of messenger RNA processing by BRCA1/BARD1 complex.", "journal": "Cancer research", "date": "2006", "authors": "Kim HS, Li H, Cevher M, Parmelee A, Fonseca D, Kleiman FE, Lee SB", "reference": { "type": "PubMed", "id": "16651405", "url": "https://pubmed.ncbi.nlm.nih.gov/16651405" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q04323-1", "protein_name": "UBX domain-containing protein 1", "gene_name": 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"gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00213-1", "protein_name": "Amyloid beta 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functions by a nuclear partner, PALB2.", "journal": "Molecular cell", "date": "2006", "authors": "Xia B, Sheng Q, Nakanishi K, Ohashi A, Wu J, Christ N, Liu X, Jasin M, Couch FJ, Livingston DM", "reference": { "type": "PubMed", "id": "16793542", "url": "https://pubmed.ncbi.nlm.nih.gov/16793542" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q06609-1", "protein_name": "DNA repair protein RAD51 homolog 1", "gene_name": "RAD51", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96E14-1", "protein_name": "RecQ-mediated genome instability protein 2", "gene_name": "RMI2", "tax_name": "Human" }, { "uniprot_canonical_ac": "O15315-3", "protein_name": "DNA repair protein RAD51 homolog 2", "gene_name": "RAD51B", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13472-1", "protein_name": "DNA topoisomerase 3-alpha", "gene_name": 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Biol. 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"tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { 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"UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], 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America", "date": "2007", "authors": "Li B, Samanta A, Song X, Iacono KT, Bembas K, Tao R, Basu S, Riley JL, Hancock WW, Shen Y, Saouaf SJ, Greene MI", "reference": { "type": "PubMed", "id": "17360565", "url": "https://pubmed.ncbi.nlm.nih.gov/17360565" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9BZS1-1", "protein_name": "Forkhead box protein P3", "gene_name": "FOXP3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8WUI4-1", "protein_name": "Histone deacetylase 7", "gene_name": "HDAC7", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UKV0-1", "protein_name": "Histone deacetylase 9", "gene_name": "HDAC9", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": 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"glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Cernunnos/XLF promotes the ligation of mismatched and noncohesive DNA ends.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007", "authors": "Tsai CJ, Kim SA, Chu G", "reference": { "type": "PubMed", "id": "17470781", "url": "https://pubmed.ncbi.nlm.nih.gov/17470781" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZW49-6", "protein_name": "PAX-interacting protein 1", "gene_name": "PAXIP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UGP5-1", "protein_name": "DNA polymerase lambda", "gene_name": "POLL", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NP87-1", "protein_name": "DNA-directed DNA/RNA polymerase mu", "gene_name": "POLM", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q5UIP0-1", "protein_name": "Telomere-associated protein RIF1", "gene_name": "RIF1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NUW8-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 1", "gene_name": "TDP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95551-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 2", "gene_name": "TDP2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": 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"gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex 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SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.17470781", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 51 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": 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"count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Abraxas and RAP80 form a BRCA1 protein complex required for the DNA damage response.", "journal": "Science (New York, N.Y.)", "date": "2007", "authors": "Wang B, Matsuoka S, Ballif BA, Zhang D, Smogorzewska A, Gygi SP, Elledge SJ", "reference": { "type": "PubMed", "id": "17525340", "url": "https://pubmed.ncbi.nlm.nih.gov/17525340" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q04323-1", "protein_name": "UBX domain-containing protein 1", "gene_name": "UBXN1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92560-1", "protein_name": "Ubiquitin carboxyl-terminal hydrolase BAP1", "gene_name": "BAP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O94953-1", "protein_name": "Lysine-specific demethylase 4B", "gene_name": "KDM4B", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex 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"protein_name": "Small ubiquitin-related modifier 1", "gene_name": "SUMO1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00167-1", "protein_name": "Protein phosphatase EYA2", "gene_name": "EYA2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99504-1", "protein_name": "Protein phosphatase EYA3", "gene_name": "EYA3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P45983-1", "protein_name": "Mitogen-activated protein kinase 8", "gene_name": "MAPK8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60264-1", "protein_name": "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5", "gene_name": "SMARCA5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": 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"gene_name": "ABL1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG48-1", "protein_name": "Polyubiquitin-C", "gene_name": "UBC", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96017-1", "protein_name": "Serine/threonine-protein kinase Chk2", "gene_name": "CHEK2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04637-1", "protein_name": "Cellular tumor antigen p53", "gene_name": "TP53", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "mutagenesis": [ { "start_pos": 113, "end_pos": 113, "sequence_org": "A", "sequence_mut": "G", "comment": "Impairs ubiquitin-binding and localization to DNA damages sites; when associated with S-88; A-92 and A-117.", "evidence": [ { "database": "UniProtKB", "id": "Q96RL1", "url": "https://www.uniprot.org/uniprotkb/Q96RL1" }, { "database": "PubMed", "id": "17525340", "url": "https://pubmed.ncbi.nlm.nih.gov/17525340" }, { "database": "PubMed", "id": "17525342", "url": "https://pubmed.ncbi.nlm.nih.gov/17525342" }, { "database": "PubMed", "id": "17621610", "url": "https://pubmed.ncbi.nlm.nih.gov/17621610" } ], "uniprot_canonical_ac": "Q96RL1-1" }, { "start_pos": 113, "end_pos": 113, "sequence_org": "A", "sequence_mut": "S", "comment": "Impairs ubiquitin-binding and localization to DNA damages sites; when associated with S-88; A-92 and A-117.", "evidence": [ { "database": "UniProtKB", "id": "Q96RL1", "url": "https://www.uniprot.org/uniprotkb/Q96RL1" }, { "database": "PubMed", "id": "17525340", "url": 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"evidence": [ { "database": "UniProtKB", "id": "Q96RL1", "url": "https://www.uniprot.org/uniprotkb/Q96RL1" }, { "database": "PubMed", "id": "17525340", "url": "https://pubmed.ncbi.nlm.nih.gov/17525340" }, { "database": "PubMed", "id": "17525342", "url": "https://pubmed.ncbi.nlm.nih.gov/17525342" }, { "database": "PubMed", "id": "17621610", "url": "https://pubmed.ncbi.nlm.nih.gov/17621610" } ], "uniprot_canonical_ac": "Q96RL1-1" }, { "start_pos": 88, "end_pos": 88, "sequence_org": "A", "sequence_mut": "S", "comment": "Impairs localization to DNA damages sites; when associated with A-92; S-113 and A-117.", "evidence": [ { "database": "UniProtKB", "id": "Q96RL1", "url": "https://www.uniprot.org/uniprotkb/Q96RL1" }, { "database": "PubMed", "id": "17525340", "url": "https://pubmed.ncbi.nlm.nih.gov/17525340" }, { "database": "PubMed", "id": "17525342", "url": "https://pubmed.ncbi.nlm.nih.gov/17525342" }, { "database": "PubMed", "id": "17621610", "url": 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"gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "O75164-1", "protein_name": "Lysine-specific demethylase 4A", "gene_name": "KDM4A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": "Protein phosphatase EYA4", "gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00213-1", "protein_name": "Amyloid beta precursor protein binding family B member 1", "gene_name": "APBB1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P00519-1", "protein_name": "Tyrosine-protein kinase ABL1", "gene_name": "ABL1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG48-1", "protein_name": "Polyubiquitin-C", "gene_name": "UBC", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96017-1", "protein_name": "Serine/threonine-protein kinase Chk2", "gene_name": "CHEK2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04637-1", "protein_name": "Cellular tumor antigen p53", "gene_name": "TP53", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.17848578", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 60 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": 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[] } ] }, { "title": "Phosphorylation of Tat-interactive protein 60 kDa by protein kinase C epsilon is important for its subcellular localisation.", "journal": "The international journal of biochemistry & cell biology", "date": "2008", "authors": "Sapountzi V, Logan IR, Nelson G, Cook S, Robson CN", "reference": { "type": "PubMed", "id": "17851107", "url": "https://pubmed.ncbi.nlm.nih.gov/17851107" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "phosphorylation": [ { "start_pos": 298, "end_pos": 298, "kinase_uniprot_canonical_ac": "Q02156-1", "kinase_gene_name": "PRKCE", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q92993", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q92993" }, { "database": "PubMed", "id": "17851107", "url": "https://pubmed.ncbi.nlm.nih.gov/17851107" } ], "site_lbl": "Thr298", "uniprot_canonical_ac": "Q92993-1" }, { "start_pos": 300, "end_pos": 300, "kinase_uniprot_canonical_ac": "Q02156-1", "kinase_gene_name": "PRKCE", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q92993", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q92993" }, { "database": "PubMed", "id": "17851107", "url": "https://pubmed.ncbi.nlm.nih.gov/17851107" } ], "site_lbl": "Ser300", "uniprot_canonical_ac": "Q92993-1" } ], "record_id": "pubmed.17851107", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "uniprot_canonical_ac", 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"field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "The orphan nuclear receptor Rev-erbbeta recruits Tip60 and HDAC1 to regulate apolipoprotein CIII promoter.", "journal": "Biochimica et biophysica acta", "date": "2008", "authors": "Wang J, Liu N, Liu Z, Li Y, Song C, Yuan H, Li YY, Zhao X, Lu H", "reference": { "type": "PubMed", "id": "17996965", "url": "https://pubmed.ncbi.nlm.nih.gov/17996965" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14995-1", "protein_name": "Nuclear receptor subfamily 1 group D member 2", "gene_name": "NR1D2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13547-1", "protein_name": "Histone deacetylase 1", "gene_name": "HDAC1", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.17996965", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "uniprot_canonical_ac", 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], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "RNF8 ubiquitylates histones at DNA double-strand breaks and promotes assembly of repair proteins.", "journal": "Cell", "date": "2007", "authors": "Mailand N, Bekker-Jensen S, Faustrup H, Melander F, Bartek J, Lukas C, Lukas J", "reference": { "type": "PubMed", "id": "18001824", "url": "https://pubmed.ncbi.nlm.nih.gov/18001824" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" 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"gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0C0S8-1", "protein_name": "Histone H2A type 1", "gene_name": "H2AC11; H2AC13; H2AC15; H2AC16; H2AC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "P53041-1", "protein_name": "Serine/threonine-protein phosphatase 5", "gene_name": "PPP5C", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63279-1", "protein_name": 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"uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": "Protein phosphatase EYA4", "gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04908-1", "protein_name": "Histone H2A type 1-B/E", "gene_name": "H2AC4; H2AC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", 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"O96017-1", "protein_name": "Serine/threonine-protein kinase Chk2", "gene_name": "CHEK2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04637-1", "protein_name": "Cellular tumor antigen p53", "gene_name": "TP53", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "mutagenesis": [ { "start_pos": 403, "end_pos": 403, "sequence_org": "C", "sequence_mut": "S", "comment": "Marked reduction of E2-dependent ubiquitination of histone H2A. 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Does not affect ubiquitination of NBN.", "evidence": [ { "database": "UniProtKB", "id": "O76064", "url": "https://www.uniprot.org/uniprotkb/O76064" }, { "database": "PubMed", "id": "21857671", "url": "https://pubmed.ncbi.nlm.nih.gov/21857671" }, { "database": "PubMed", "id": "22405594", "url": "https://pubmed.ncbi.nlm.nih.gov/22405594" }, { "database": "PubMed", "id": "18001824", "url": "https://pubmed.ncbi.nlm.nih.gov/18001824" }, { "database": "PubMed", "id": "23233665", "url": "https://pubmed.ncbi.nlm.nih.gov/23233665" }, { "database": "PubMed", "id": "23115235", "url": "https://pubmed.ncbi.nlm.nih.gov/23115235" } ], "uniprot_canonical_ac": "O76064-1" } ], "record_id": "pubmed.18001824", "abstract": "", "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 71 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": 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"uniprot_canonical_ac": "P20671-1", "protein_name": "Histone H2A type 1-D", "gene_name": "H2AC7", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16777-1", "protein_name": "Histone H2A type 2-C", "gene_name": "H2AC20", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6FI13-1", "protein_name": "Histone H2A type 2-A", "gene_name": "H2AC18; H2AC19", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q7L7L0-1", "protein_name": "Histone H2A type 3", "gene_name": "H2AC25", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IUE6-1", "protein_name": "Histone H2A type 2-B", "gene_name": "H2AC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96QV6-1", "protein_name": "Histone H2A type 1-A", "gene_name": "H2AC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99878-1", "protein_name": "Histone H2A type 1-J", "gene_name": "H2AC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00213-1", "protein_name": "Amyloid beta precursor protein binding family B member 1", "gene_name": "APBB1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P00519-1", "protein_name": "Tyrosine-protein kinase ABL1", "gene_name": "ABL1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG48-1", "protein_name": "Polyubiquitin-C", "gene_name": "UBC", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96017-1", "protein_name": "Serine/threonine-protein kinase Chk2", "gene_name": "CHEK2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04637-1", "protein_name": "Cellular tumor antigen p53", "gene_name": "TP53", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.18001825", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 71 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], 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"sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Orchestration of the DNA-damage response by the RNF8 ubiquitin ligase.", "journal": "Science (New York, N.Y.)", "date": "2007", "authors": "Kolas NK, Chapman JR, Nakada S, Ylanko J, Chahwan R, Sweeney FD, Panier S, Mendez M, Wildenhain J, Thomson TM, Pelletier L, Jackson SP, Durocher D", "reference": { "type": "PubMed", "id": "18006705", "url": "https://pubmed.ncbi.nlm.nih.gov/18006705" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q04323-1", "protein_name": "UBX domain-containing protein 1", "gene_name": "UBXN1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92560-1", "protein_name": "Ubiquitin carboxyl-terminal hydrolase BAP1", "gene_name": "BAP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O94953-1", "protein_name": "Lysine-specific demethylase 4B", "gene_name": "KDM4B", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "P53041-1", "protein_name": "Serine/threonine-protein phosphatase 5", "gene_name": "PPP5C", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63279-1", "protein_name": "SUMO-conjugating enzyme UBC9", "gene_name": "UBE2I", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63165-1", "protein_name": "Small ubiquitin-related modifier 1", "gene_name": "SUMO1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00167-1", "protein_name": "Protein phosphatase EYA2", "gene_name": "EYA2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99504-1", "protein_name": "Protein phosphatase EYA3", "gene_name": "EYA3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P45983-1", "protein_name": "Mitogen-activated protein kinase 8", "gene_name": "MAPK8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60264-1", "protein_name": "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5", "gene_name": "SMARCA5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62979-1", "protein_name": "Ubiquitin-ribosomal protein eS31 fusion protein", "gene_name": "RPS27A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UIG0-1", "protein_name": "Tyrosine-protein kinase BAZ1B", "gene_name": "BAZ1B", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "O75164-1", "protein_name": "Lysine-specific demethylase 4A", "gene_name": "KDM4A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": 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"protein_name": "Amyloid beta precursor protein binding family B member 1", "gene_name": "APBB1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P00519-1", "protein_name": "Tyrosine-protein kinase ABL1", "gene_name": "ABL1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG48-1", "protein_name": "Polyubiquitin-C", "gene_name": "UBC", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96017-1", "protein_name": "Serine/threonine-protein kinase Chk2", "gene_name": "CHEK2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04637-1", "protein_name": "Cellular tumor antigen p53", "gene_name": "TP53", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": 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"count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Crystal structure of human XLF/Cernunnos reveals unexpected differences from XRCC4 with implications for NHEJ.", "journal": "The EMBO journal", "date": "2008", "authors": "Li Y, Chirgadze DY, Bolanos-Garcia VM, Sibanda BL, Davies OR, Ahnesorg P, Jackson SP, Blundell TL", "reference": { "type": "PubMed", "id": "18046455", "url": "https://pubmed.ncbi.nlm.nih.gov/18046455" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZW49-6", "protein_name": "PAX-interacting protein 1", "gene_name": "PAXIP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UGP5-1", "protein_name": "DNA polymerase lambda", "gene_name": "POLL", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NP87-1", "protein_name": "DNA-directed DNA/RNA polymerase mu", "gene_name": "POLM", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q90YB1-1", "protein_name": "DNA ligase 4", "gene_name": "LIG4", "tax_name": "Chicken" }, { "uniprot_canonical_ac": "Q5UIP0-1", "protein_name": "Telomere-associated protein RIF1", "gene_name": "RIF1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NUW8-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 1", "gene_name": "TDP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95551-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 2", "gene_name": "TDP2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13426-1", "protein_name": "DNA repair protein XRCC4", "gene_name": "XRCC4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49917-1", "protein_name": "DNA ligase 4", "gene_name": "LIG4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P13010-1", "protein_name": "DNA repair protein Ku80", "gene_name": "XRCC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "O93257-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Chicken" }, { "uniprot_canonical_ac": "Q8QGX4-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Chicken" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.18046455", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 54 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { 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"n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Ubc13/Rnf8 ubiquitin ligases control foci formation of the Rap80/Abraxas/Brca1/Brcc36 complex in response to DNA damage.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007", "authors": "Wang B, Elledge SJ", "reference": { "type": "PubMed", "id": "18077395", "url": "https://pubmed.ncbi.nlm.nih.gov/18077395" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q04323-1", "protein_name": "UBX domain-containing protein 1", "gene_name": "UBXN1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92560-1", "protein_name": "Ubiquitin carboxyl-terminal hydrolase BAP1", "gene_name": "BAP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O94953-1", "protein_name": "Lysine-specific demethylase 4B", "gene_name": "KDM4B", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "P53041-1", "protein_name": "Serine/threonine-protein phosphatase 5", "gene_name": "PPP5C", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63279-1", "protein_name": "SUMO-conjugating enzyme UBC9", "gene_name": "UBE2I", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63165-1", "protein_name": "Small ubiquitin-related modifier 1", "gene_name": "SUMO1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00167-1", "protein_name": "Protein phosphatase EYA2", "gene_name": "EYA2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99504-1", "protein_name": "Protein phosphatase EYA3", "gene_name": "EYA3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P45983-1", "protein_name": "Mitogen-activated protein kinase 8", "gene_name": "MAPK8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60264-1", "protein_name": "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5", "gene_name": "SMARCA5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62979-1", "protein_name": "Ubiquitin-ribosomal protein eS31 fusion protein", "gene_name": "RPS27A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UIG0-1", "protein_name": "Tyrosine-protein kinase BAZ1B", "gene_name": "BAZ1B", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "O75164-1", "protein_name": "Lysine-specific demethylase 4A", "gene_name": "KDM4A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": "Protein phosphatase EYA4", "gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00213-1", "protein_name": "Amyloid beta precursor protein binding family B member 1", "gene_name": "APBB1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P00519-1", "protein_name": "Tyrosine-protein kinase ABL1", "gene_name": "ABL1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG48-1", "protein_name": "Polyubiquitin-C", "gene_name": "UBC", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96017-1", "protein_name": "Serine/threonine-protein kinase Chk2", "gene_name": "CHEK2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04637-1", "protein_name": "Cellular tumor antigen p53", "gene_name": "TP53", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.18077395", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 60 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Regulation of TIP60 by ATF2 modulates ATM activation.", "journal": "J. Biol. Chem.", "date": "2008", "authors": "Bhoumik Anindita, Singha Netai, O'Connell Matthew J, Ronai Ze'ev A", "reference": { "type": "PubMed", "id": "18397884", "url": "https://pubmed.ncbi.nlm.nih.gov/18397884" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P15336-1", "protein_name": "Cyclic AMP-dependent transcription factor ATF-2", "gene_name": "ATF2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62877-1", "protein_name": "E3 ubiquitin-protein ligase RBX1", "gene_name": "RBX1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13618-1", "protein_name": "Cullin-3", "gene_name": "CUL3", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.18397884", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "End-bridging is required for pol mu to efficiently promote repair of noncomplementary ends by nonhomologous end joining.", "journal": "Nucleic acids research", "date": "2008", "authors": "Davis BJ, Havener JM, Ramsden DA", "reference": { "type": "PubMed", "id": "18397950", "url": "https://pubmed.ncbi.nlm.nih.gov/18397950" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "P12956-1", "protein_name": "DNA repair protein Ku70", "gene_name": "XRCC6", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6ZW49-6", "protein_name": "PAX-interacting protein 1", "gene_name": "PAXIP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UGP5-1", "protein_name": "DNA polymerase lambda", "gene_name": "POLL", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NP87-1", "protein_name": "DNA-directed DNA/RNA polymerase mu", "gene_name": "POLM", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q5UIP0-1", "protein_name": "Telomere-associated protein RIF1", "gene_name": "RIF1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NUW8-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 1", "gene_name": "TDP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95551-1", "protein_name": "Tyrosyl-DNA phosphodiesterase 2", "gene_name": "TDP2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase 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"Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P78527-1", "protein_name": "DNA-dependent protein kinase catalytic subunit", "gene_name": "PRKDC", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96SD1-1", "protein_name": "Protein artemis", "gene_name": "DCLRE1C", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9H9Q4-1", "protein_name": "Non-homologous end-joining factor 1", "gene_name": "NHEJ1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": 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"protein_name": "Protein phosphatase EYA3", "gene_name": "EYA3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P45983-1", "protein_name": "Mitogen-activated protein kinase 8", "gene_name": "MAPK8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60264-1", "protein_name": "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5", "gene_name": "SMARCA5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62979-1", "protein_name": "Ubiquitin-ribosomal protein eS31 fusion protein", "gene_name": "RPS27A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UIG0-1", "protein_name": "Tyrosine-protein kinase BAZ1B", "gene_name": "BAZ1B", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "O75164-1", "protein_name": "Lysine-specific demethylase 4A", "gene_name": "KDM4A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": "Protein phosphatase EYA4", "gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00213-1", "protein_name": "Amyloid beta precursor protein binding family B member 1", "gene_name": "APBB1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P00519-1", "protein_name": "Tyrosine-protein kinase ABL1", "gene_name": "ABL1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG48-1", "protein_name": "Polyubiquitin-C", "gene_name": "UBC", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96017-1", "protein_name": "Serine/threonine-protein kinase Chk2", "gene_name": "CHEK2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04637-1", "protein_name": "Cellular tumor antigen p53", "gene_name": "TP53", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "mutagenesis": [ { "start_pos": 379, "end_pos": 379, "sequence_org": "S", "sequence_mut": "A", "comment": "Abrogates autophosphorylation at Ser-379 and prevents ubiquitination.", "evidence": [ { "database": "UniProtKB", "id": "O96017", "url": "https://www.uniprot.org/uniprotkb/O96017" }, { "database": "PubMed", "id": "18644861", "url": "https://pubmed.ncbi.nlm.nih.gov/18644861" } ], "uniprot_canonical_ac": "O96017-1" } ], "phosphorylation": [ { "start_pos": 379, "end_pos": 379, "kinase_uniprot_canonical_ac": "O96017-1", "kinase_gene_name": "CHEK2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "O96017", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/O96017" }, { "database": "PubMed", "id": "18644861", "url": "https://pubmed.ncbi.nlm.nih.gov/18644861" }, { "database": "UniProtKB", "id": "O96017", "url": "https://www.uniprot.org/uniprotkb/O96017" } ], "site_lbl": "Ser379", "uniprot_canonical_ac": "O96017-1" }, { "start_pos": 379, "end_pos": 379, "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by autocatalysis", "evidence": [ { "database": "UniProtKB", "id": "O96017", "url": "https://www.uniprot.org/uniprotkb/O96017" }, { "database": "PRO", "id": "O96017", "url": "https://proconsortium.org/cgi-bin/entry_pro?id=O96017" }, { "database": "iPTMnet", "id": "O96017", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/O96017" }, { "database": "PubMed", "id": "18644861", "url": "https://pubmed.ncbi.nlm.nih.gov/18644861" }, { "database": "PubMed", "id": "20713355", "url": "https://pubmed.ncbi.nlm.nih.gov/20713355" } ], "site_lbl": "Ser379", "uniprot_canonical_ac": "O96017-1" } ], "record_id": "pubmed.18644861", "abstract": "", "glycosylation": [], "snv": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 61 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", 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}, { "title": "NFBD1/MDC1, 53BP1 and BRCA1 have both redundant and unique roles in the ATM pathway.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2008", "authors": "Wilson KA, Stern DF", "reference": { "type": "PubMed", "id": "19001859", "url": "https://pubmed.ncbi.nlm.nih.gov/19001859" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q92993-1", "protein_name": "Histone acetyltransferase KAT5", "gene_name": "KAT5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q04323-1", "protein_name": "UBX domain-containing protein 1", "gene_name": "UBXN1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60934-1", "protein_name": "Nibrin", "gene_name": "NBN", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q14676-1", "protein_name": "Mediator of DNA damage checkpoint protein 1", "gene_name": "MDC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92560-1", "protein_name": "Ubiquitin carboxyl-terminal hydrolase BAP1", "gene_name": "BAP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O76064-1", "protein_name": "E3 ubiquitin-protein ligase RNF8", "gene_name": "RNF8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O94953-1", "protein_name": "Lysine-specific demethylase 4B", "gene_name": "KDM4B", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q12888-1", "protein_name": "TP53-binding protein 1", "gene_name": "TP53BP1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16695-1", "protein_name": "Histone H3.1t", "gene_name": "H3-4", "tax_name": "Human" }, { "uniprot_canonical_ac": "P46736-1", "protein_name": "Lys-63-specific deubiquitinase BRCC36", "gene_name": "BRCC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96RL1-1", "protein_name": "BRCA1-A complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "P53041-1", "protein_name": "Serine/threonine-protein phosphatase 5", "gene_name": "PPP5C", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63279-1", "protein_name": "SUMO-conjugating enzyme UBC9", "gene_name": "UBE2I", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63165-1", "protein_name": "Small ubiquitin-related modifier 1", "gene_name": "SUMO1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00167-1", "protein_name": "Protein phosphatase EYA2", "gene_name": "EYA2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99504-1", "protein_name": "Protein phosphatase EYA3", "gene_name": "EYA3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P45983-1", "protein_name": "Mitogen-activated protein kinase 8", "gene_name": "MAPK8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60264-1", "protein_name": "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5", "gene_name": "SMARCA5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62979-1", "protein_name": "Ubiquitin-ribosomal protein eS31 fusion protein", "gene_name": "RPS27A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UIG0-1", "protein_name": "Tyrosine-protein kinase BAZ1B", "gene_name": "BAZ1B", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "O75164-1", "protein_name": "Lysine-specific demethylase 4A", "gene_name": "KDM4A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", 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complex subunit RAP80", "gene_name": "UIMC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q6UWZ7-1", "protein_name": "BRCA1-A complex subunit Abraxas 1", "gene_name": "ABRAXAS1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62805-1", "protein_name": "Histone H4", "gene_name": "H4C11; H4C12; H4C13; H4C14; H4C15; H4C16; H4C1; H4C2; H4C3; H4C4; H4C5; H4C6; H4C8; H4C9", "tax_name": "Human" }, { "uniprot_canonical_ac": "P53041-1", "protein_name": "Serine/threonine-protein phosphatase 5", "gene_name": "PPP5C", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63279-1", "protein_name": "SUMO-conjugating enzyme UBC9", "gene_name": "UBE2I", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q16778-1", "protein_name": "Histone H2B type 2-E", "gene_name": "H2BC21", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62807-1", "protein_name": "Histone H2B type 1-C/E/F/G/I", "gene_name": "H2BC10; H2BC4; H2BC6; H2BC7; H2BC8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96028-1", "protein_name": "Histone-lysine N-methyltransferase NSD2", "gene_name": "NSD2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P63165-1", "protein_name": "Small ubiquitin-related modifier 1", "gene_name": "SUMO1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P49959-1", "protein_name": "Double-strand break repair protein MRE11", "gene_name": "MRE11", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00167-1", "protein_name": "Protein phosphatase EYA2", "gene_name": "EYA2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99504-1", "protein_name": "Protein phosphatase EYA3", "gene_name": "EYA3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P45983-1", "protein_name": "Mitogen-activated protein kinase 8", "gene_name": "MAPK8", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60264-1", "protein_name": "SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5", "gene_name": "SMARCA5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99728-1", "protein_name": "BRCA1-associated RING domain protein 1", "gene_name": "BARD1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NWV8-1", "protein_name": "BRISC and BRCA1-A complex member 1", "gene_name": "BABAM1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62979-1", "protein_name": "Ubiquitin-ribosomal protein eS31 fusion protein", "gene_name": "RPS27A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9NXR7-2", "protein_name": "BRISC and BRCA1-A complex member 2", "gene_name": "BABAM2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q9UIG0-1", "protein_name": "Tyrosine-protein kinase BAZ1B", "gene_name": "BAZ1B", "tax_name": "Human" }, { "uniprot_canonical_ac": "P16104-1", "protein_name": "Histone H2AX", "gene_name": "H2AX", "tax_name": "Human" }, { "uniprot_canonical_ac": "P61088-1", "protein_name": "Ubiquitin-conjugating enzyme E2 N", "gene_name": "UBE2N", "tax_name": "Human" }, { "uniprot_canonical_ac": "P33778-1", "protein_name": "Histone H2B type 1-B", "gene_name": "H2BC3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P58876-1", "protein_name": "Histone H2B type 1-D", "gene_name": "H2BC5", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q96A08-1", "protein_name": "Histone H2B type 1-A", "gene_name": "H2BC1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P23527-1", "protein_name": "Histone H2B type 1-O", "gene_name": "H2BC17", "tax_name": "Human" }, { "uniprot_canonical_ac": "O75164-1", "protein_name": "Lysine-specific demethylase 4A", "gene_name": "KDM4A", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8IYW5-1", "protein_name": "E3 ubiquitin-protein ligase RNF168", "gene_name": "RNF168", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N2W9-1", "protein_name": "E3 SUMO-protein ligase PIAS4", "gene_name": "PIAS4", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60814-1", "protein_name": "Histone H2B type 1-K", "gene_name": "H2BC12", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q93079-1", "protein_name": "Histone H2B type 1-H", "gene_name": "H2BC9", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99879-1", "protein_name": "Histone H2B type 1-M", "gene_name": "H2BC14", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q15819-1", "protein_name": "Ubiquitin-conjugating enzyme E2 variant 2", "gene_name": "UBE2V2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q92878-1", "protein_name": "DNA repair protein RAD50", "gene_name": "RAD50", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG47-1", "protein_name": "Polyubiquitin-B", "gene_name": "UBB", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62987-1", "protein_name": "Ubiquitin-ribosomal protein eL40 fusion protein", "gene_name": "UBA52", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95677-1", "protein_name": "Protein phosphatase EYA4", "gene_name": "EYA4", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99502-1", "protein_name": "Protein phosphatase EYA1", "gene_name": "EYA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "O95714-1", "protein_name": "E3 ubiquitin-protein ligase HERC2", "gene_name": "HERC2", "tax_name": "Human" }, { "uniprot_canonical_ac": "P06899-1", "protein_name": "Histone H2B type 1-J", "gene_name": "H2BC11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P57053-1", "protein_name": "Histone H2B type F-S", "gene_name": "H2BC12L", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8N257-1", "protein_name": "Histone H2B type 3-B", "gene_name": "H2BC26", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99877-1", "protein_name": "Histone H2B type 1-N", "gene_name": "H2BC15", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q99880-1", "protein_name": "Histone H2B type 1-L", "gene_name": "H2BC13", "tax_name": "Human" }, { "uniprot_canonical_ac": "O00213-1", "protein_name": "Amyloid beta precursor protein binding family B member 1", "gene_name": "APBB1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P00519-1", "protein_name": "Tyrosine-protein kinase ABL1", "gene_name": "ABL1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P38398-1", "protein_name": "Breast cancer type 1 susceptibility protein", "gene_name": "BRCA1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P0CG48-1", "protein_name": "Polyubiquitin-C", "gene_name": "UBC", "tax_name": "Human" }, { "uniprot_canonical_ac": "O96017-1", "protein_name": "Serine/threonine-protein kinase Chk2", "gene_name": "CHEK2", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q13315-1", "protein_name": "Serine-protein kinase ATM", "gene_name": "ATM", "tax_name": "Human" }, { "uniprot_canonical_ac": "P04637-1", "protein_name": "Cellular tumor antigen p53", "gene_name": "TP53", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q92993", "url": "https://www.uniprot.org/uniprotkb/Q92993" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.19117993", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 60 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] } ]