title: Probing the Binding Interfaces of Histone-Aptamer by Photo Cross-Linking Mass Spectrometry.
abstract: Histone proteins, which could interact with DNA, play important roles in the regulation of chromatin structures, transcription, and other DNA-based biological processes. Here, we developed a novel aptamer-based probe for the analysis of histone H4-aptamer interfaces. This probe contains a DNA sequence for specific recognition of histone H4, a biotin tag for affinity enrichment, an aryl azide photoactive group for cross-linking and a cleavable disulfide group to dissociate aptamer from labeled histones. We successfully achieved specific enrichment of histone H4 and further developed a new analysis strategy for histone-aptamer interaction by photo cross-linking mass spectrometry. The binding area of histone H4 to aptamer was investigated and discussed for the first time. This strategy exhibits great potential and might further contribute to the understanding of histone-DNA interaction patterns.
authors.affiliation: Department of Chemistry, Nankai University , Tianjin 300071, People's Republic of China.
authors.forename: Congcong
authors.initials: C
authors.lastname: Lu
authors.affiliation: Tianjin Key Laboratory of Medical Epigenetics, Key Laboratory of Immune Microenvironment and Disease (Ministry of Education), Department of Biochemistry and Molecular Biology, Tianjin Medical University , Tianjin 300070, People's Republic of China.
authors.forename: Shanshan
authors.initials: S
authors.lastname: Tian
authors.affiliation: Tianjin Key Laboratory of Medical Epigenetics, Key Laboratory of Immune Microenvironment and Disease (Ministry of Education), Department of Biochemistry and Molecular Biology, Tianjin Medical University , Tianjin 300070, People's Republic of China.
authors.forename: Guijin
authors.initials: G
authors.lastname: Zhai
authors.affiliation: Department of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania , Philadelphia, Pennsylvania 19104, United States.
authors.forename: Zuofei
authors.initials: Z
authors.lastname: Yuan
authors.affiliation: Department of Chemistry, Nankai University , Tianjin 300071, People's Republic of China.
authors.forename: Yijun
authors.initials: Y
authors.lastname: Li
authors.affiliation: Department of Chemistry, Nankai University , Tianjin 300071, People's Republic of China.
authors.forename: Xiwen
authors.initials: X
authors.lastname: He
authors.affiliation: Department of Chemistry, Nankai University , Tianjin 300071, People's Republic of China.|Dalian Institute of Chemical Physics, Chinese Academy of Sciences , Dalian 116023, People's Republic of China.
authors.forename: Yukui
authors.initials: Y
authors.lastname: Zhang
authors.affiliation: Department of Chemistry, Nankai University , Tianjin 300071, People's Republic of China.|Tianjin Key Laboratory of Medical Epigenetics, Key Laboratory of Immune Microenvironment and Disease (Ministry of Education), Department of Biochemistry and Molecular Biology, Tianjin Medical University , Tianjin 300070, People's Republic of China.
authors.forename: Kai
authors.identifier: 0000-0003-2800-0531
authors.initials: K
authors.lastname: Zhang
mesh_terms: D052157:Aptamers, Nucleotide / Q000737:chemistry / Q000378:metabolism*; D001665:Binding Sites; D019921:Biotinylation; D003432:Cross-Linking Reagents / Q000737:chemistry / Q000378:metabolism; D004220:Disulfides / Q000737:chemistry / Q000378:metabolism; D006657:Histones / Q000737:chemistry / Q000378:metabolism*; D006801:Humans; D008027:Light; D013058:Mass Spectrometry
chemical_list: D052157:Aptamers, Nucleotide; D003432:Cross-Linking Reagents; D004220:Disulfides; D006657:Histones