Acidic domains differentially read histone H3 lysine 4 methylation status and are widely present in chromatin-associated proteins

作     者：Meng Wu Wei Wei Jiwei Chen Rong Cong Tieliu Shi Jiwen Li Jiemin Wong James X.Du 

作者机构：Shanghai Key Laboratory of Regulatory Biologythe Institute of Biomedical Sciences and School of Life SciencesEast China Normal UniversityShanghai 200241China Collaborative Innovation Center for Cancer MedicineSun Yat-Sen University Cancer CenterGuangzhou 510060China University de LyonEcole Normale Supdrieure de LyonCNRS USR 3010Laboratoire Joliot-CurieLyon 69364France 

出 版 物：《Science China(Life Sciences)》 (中国科学（生命科学英文版）)

年 卷 期：2017年第60卷第2期

页      面：138-151页

核心收录：

学科分类：0710[理学-生物学] 07[理学] 071007[理学-遗传学] 

基　　金：supported by the Ministry of Science and Technology of China(2015CB910402)to Jiemin Wong the National Natural Science Foundation of China(91419303) The Science and Technology Commission of Shanghai Municipality(14XD1401700,11DZ2260300) the National Science&Technology Major Project“Key New Drug Creation and Manufacturing Program”of China(2014ZX09507002-002) 

主　　题：histone methylation H3K4mel H3K4me2 H3K4me3 acidic domain histone code transcription chromatin 

摘      要：Histone methylation is believed to provide binding sites for specific reader proteins, which translate histone code into biological function. Here we show that a family of acidic domain-containing proteins including nucleophosmin （NPM 1）, pp32, SET/TAF 113, nucleolin （NCL） and upstream binding factor （UBF） are novel H3K4me2-binding proteins. These proteins exhibit a unique pattern of interaction with methylated H3K4, as their binding is stimulated by H3K4me2 and inhibited by H3K4mel and H3K4me3. These proteins contain one or more acidic domains consisting mainly of aspartic and/or glutamic residues that are necessary for preferential binding of H3K4me2. Furthermore, we demonstrate that the acidic domain with sufficient length alone is capable of binding H3K4me2 in vitro and in vivo. NPM1, NCL and UBF require their acidic domains for association with and transcriptional activation ofrDNA genes. Interestingly, by defining acidic domain as a sequence with at least 20 acidic residues in 50 continuous amino acids, we identified 655 acidic domain-containing protein coding genes in the human genome and Gene Ontology （GO） analysis showed that many of the acidic domain proteins have chromatin-related functions. Our data suggest that acidic domain is a novel histone binding motif that can differentially read the status of H3K4 methylation and is broadly present in chromatin-associated proteins.