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A Chemical Footprinting Approach towards Poly-ADP-Ribosylation-regulated Biomolecular Condensation

聚 ADP 核糖基化调节生物分子缩合的化学足迹方法

基本信息

批准号：
10610165
负责人：
Yonghao Yu
金额：
$ 32.23万
依托单位：
COLUMBIA UNIVERSITY HEALTH SCIENCES
依托单位国家：
美国
项目类别：
财政年份：
2022
资助国家：
美国
起止时间：
2022-09-01 至 2026-11-30
项目状态：
未结题

来源：
https://reporter.nih.gov/project-details/10610165
关键词：
ADP ribosylation Acylation Address Amino Acids Amyotrophic Lateral Sclerosis Animal Model Binding Binding Proteins Biological Biological Process Brain Cell Death Cell Nucleus Cells Cellular Stress Cerebellar Ataxia Cessation of life Chemicals DNA DNA Damage DNA Repair Data Diffuse Enzymes FDA approved Family Genetic Genotoxic Stress Heterogeneous-Nuclear Ribonucleoproteins Human Imidazole In Vitro Length Malignant Neoplasms Malignant neoplasm of ovary Mass Spectrum Analysis Mediating Membrane Messenger RNA Methods Modification Molecular Conformation Mutate Nature Neurons Neurotoxins Nitrogen Nuclear Nuclear Pore Nuclear Protein Nucleic Acids Organelles Oxygen Parkinson Disease Pathogenesis Pathologic Pathway interactions Pharmacology Phase Transition Physical condensation Poly Adenosine Diphosphate Ribose Poly(ADP-ribose) Polymerases Polymers Post-Translational Protein Processing Process Protein Analysis Proteins Proteome Publishing RNA Reagent Recombinants Regulation Role Sampling Seeds Series Side Signal Transduction Site Stimulant Structure Surface System Traumatic Brain Injury Work acyl group aspartylglutamate base biological adaptation to stress biophysical tools brain dysfunction density experience experimental study genotoxicity inhibitor malignant breast neoplasm mouse model nervous system disorder neuron loss neurotoxic novel programs protein aggregation response self assembly small molecule spatiotemporal

项目摘要

Project Summary Poly-ADP-ribosylation (PARylation) is a protein posttranslational modification (PTM) that is catalyzed by a family of enzymes called Poly-ADP-ribose polymerases (PARPs). Among the various PARP enzymes, PARP1 is a nuclear protein that is critically involved in cell stress responses. The PARylation level in a quiescent cell is usually very low. In response to genotoxic stress, PARP1 binds to nicked DNA and is rapidly activated, resulting in the synthesis of a large number of PARylated proteins and initiation of the DNA damage repair (DDR) mechanisms. Indeed, four PARP1 inhibitors have recently been approved by the FDA to treat BRCA- mutated ovarian and/or breast cancers. Besides the role in regulating DDR in the context of human malignancies, recent evidence suggests that PARylation serves as a death signal in neurons. Importantly, genetic deletion or pharmacological inhibition of PARP1 offers profound protection against brain dysfunction in the animal models of many neurological disorders (e.g., Parkinson’s disease, amyotrophic lateral sclerosis, traumatic brain injury and cerebellar ataxia). PARP1 is directly activated by a variety of neurotoxic stimulants, and aberrant PARylation promotes the formation of biomolecular condensates. Despite the established role of PARylation in the regulation of phase-transition, the structural aspects of this process are elusive. To address this, we will leverage our published work and the extensive experience of my lab. These preliminary data are largely focused on two different programs. First, PARylation is a notorious PTM for mass spectrometrists, because of its labile and heterogenous nature. We recently were able to overcome these challenges, and develope a large-scale mass spectrometric approach towards comprehensive characterization of the Asp- and Glu-PARylated proteome. Using this approach, we have defined the global PARylated proteome under various genotoxic conditions. Second, biomolecular condensates are a class of membrane-less organelles, whose structural dynamics are less amenable to traditional biophysical tools. To address this, we previously developed a mass spectrometry-based chemical “footprinting” method for the structural analysis of these protein fibrils. Based on these results, we will develop a novel, tunable footprinting approach for the characterization of the structural dynamics of biomolecular condensates (Aim 1). Then we will use tunable footprinting to study how PARylation regulates phase-transition in vitro (Aim 2) and in intact nuclei (Aim 3). The information garnered from these studies will provide a fundamental understanding of this critical biological process, paving the way for targeting PARP1 for the treatment of neurological disorders.

项目总结