Deciphering the molecular mechanisms of histone code recognition by ATAD2/B

破译 ATAD2/B 组蛋白密码识别的分子机制

• 批准号: 9788498
• 负责人: Seth E Frietze
• 金额: $ 47.87万
• 依托单位: ALBANY COLLEGE OF PHARMACY
• 依托单位国家: 美国
• 财政年份: 2018
• 资助国家: 美国
• 起止时间: 2018-09-19 至 2022-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/9788498
• 关键词: ATP phosphohydrolase; ATPase Domain; Acetylation; Affinity; Amino Acid Sequence; Androgen Receptor; Apoptosis; Automobile Driving; Binding; Biochemical; Biological; Biological Assay; Biological Process; Biophysics; Breast; Breast Cancer Cell; Bromodomain; Calorimetry; Cell Proliferation; Cell physiology; Cells; ChIP-seq; Chemicals; Chromatin; Code; Colorectal Cancer; Complex; Coupled; DNA; Data; Development; Disease; Endometrial; Endometrial Carcinoma; Epigenetic Process; Estrogen Receptors; Family; Fetal Development; Gene Expression; Gene Expression Profile; Genes; Genetic Code; Genomic approach; Goals; Histone Acetylation; Histone Code; Histone H4; Histones; In Vitro; Investigation; Journals; Kidney; Knowledge; Ligand Binding; Ligands; Light; Link; Lung; Malignant Neoplasms; Malignant neoplasm of lung; Malignant neoplasm of prostate; Measures; Modeling; Modification; Molecular; Molecular Sieve Chromatography; Neoplasm Metastasis; Nuclear; Nuclear Magnetic Resonance; Ovarian Carcinoma; Patient-Focused Outcomes; Pattern; Peptides; Phenotype; Play; Positioning Attribute; Post-Translational Protein Processing; Primary carcinoma of the liver cells; Prognostic Marker; Prostate; Proteins; RNA; RNA Interference; Reader; Relaxation; Renal carcinoma; Research; Role; SECTM1 gene; Signal Transduction; Site-Directed Mutagenesis; Stem cells; Stomach; Structure; TYRP1 gene; Tail; Techniques; Testing; Time; Titrations; Up-Regulation; X-Ray Crystallography; analytical ultracentrifugation; base; biophysical techniques; breast cancer progression; cancer cell; cancer risk; cancer therapy; cancer type; cell motility; design; experimental study; functional genomics; genome wide association study; histone modification; in vivo; insight; malignant breast neoplasm; malignant stomach neoplasm; migration; new therapeutic target; novel; overexpression; paralogous gene; protein B; protein function; recruit; structural biology; targeted biomarker; transcriptome sequencing; tumor progression; tumorigenesis

ATAD2 is an important co-activator of the estrogen and androgen receptors. ATAD2 is known to be up- regulated in multiple different types of cancer including breast, lung, gastric, endometrial, renal, and prostate. Up-regulation of ATAD2 is often correlated with poor patient outcomes, and can be used as prognostic marker. Furthermore, silencing the expression of ATAD2 through RNA interference inhibits cell proliferation and promotes apoptosis in ovarian carcinoma, and inhibits migration and invasion of hepatocellular carcinoma and colorectal cancer cells. ATAD2B, is a poorly studied paralog of the ATAD2 gene, and although ATAD2 and ATAD2B are highly conserved, there is little known about the function of ATAD2B or its role in oncogenesis. Both the ATAD2/B proteins contain two conserved domains: an AAA ATPase domain and a bromodomain. The overall objective of the proposed research is to determine how di-acetyllysine recognition by the ATAD2/B bromodomains regulates the cellular function of these proteins. This proposal aims to: (1) characterize how cross-talk between histone modifications modulate acetyllysine recognition by the ATAD2/B bromodomains; (2) outline the molecular mechanism(s) of di-acetylated histone recognition by the ATAD2/B bromodomains; (3) determine the functional significance of di-acetyllysine recognition by the ATAD2/B bromodomains. A unique combination of in vitro biochemical, biophysical, and structural biology studies on the ATAD2/B bromodomains will be coupled with in vivo functional genomic investigations using a breast cancer progression model to characterize the biological roles of the ATAD2/B bromodomains. We will evaluate the impact of neighboring histone modifications on histone H4 tail recognition using peptide array assays in combination with isothermal titration calorimetry (ITC) and nuclear magnetic resonance (NMR) chemical shift perturbation techniques. We will determine the structural features of ATAD2/B bromodomains required for recognition of di-acetylated histone tail ligands using NMR and/or X-ray crystallography. To characterize the binding mode of the ATAD2/B bromodomains with their histone ligands we will carry out analytical ultracentrifugation, size-exclusion chromatography, ITC, and NMR T1/T2 relaxation experiments. Site-directed mutagenesis coupled with NMR and ITC will be used to measure the effects on ligand binding, and identify differences in the binding pockets of the ATAD2/B bromodomains. We will compare the genome-wide associations of ATAD2/B with histone H4 acetylation patterns in a breast cancer progression model to determine the impact of ATAD2/B on breast cancer cell phenotypes using ChIP-seq and RNA-seq, followed by cellular migration and invasion assays. Our multi-faceted approach will correlate specific histone modifications with ATAD2/B binding and action, which will allow us to connect histone H4 acetylation marks to bromodomain function in cancer cell proliferation. Overall, our integrated biochemical, biophysical, structural biology and functional genomics approach will reveal the biological roles of ATAD2/B and facilitate the discovery of novel drug targets to help overcome cancer.

ATAD2是雌激素和雄激素受体的重要共激活剂。已知ATAD2是up-