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The Impact of Mutation on the Conformations and Recognition of Ubiquitin

突变对泛素构象和识别的影响

基本信息

批准号：
8335438
负责人：
James Solomon Fraser
金额：
$ 35.63万
依托单位：
UNIVERSITY OF CALIFORNIA, SAN FRANCISCO
依托单位国家：
美国
项目类别：
财政年份：
2011
资助国家：
美国
起止时间：
2011-09-20 至 2016-08-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/8335438
关键词：
Active Sites Address Affect Binding Catalysis Cells Complement Coupled Custom Data Data Collection Defect Disease Enzymes Eukaryota Evaluation Future Genetic Hereditary Disease In Vitro Individual Knowledge Libraries Lysine Maps Measures Mediating Methods Modeling Molecular Molecular Conformation Monitor Mutate Mutation Peptidylprolyl Isomerase Phenotype Polyubiquitin Population Protein Conformation Protein Engineering Proteins Relative (related person)Resolution Roentgen Rays Role Saccharomyces cerevisiae Sampling Side Site Specificity Speed Structure Surface Temperature Testing Ubiquitin Work X-Ray Crystallography Yeasts abstracting base cost design disease-causing mutation drug discovery electron density engineering design genome sequencing improved in vivo interest molecular recognition mutant protein function protein protein interaction protein structure research study response small molecule tool

项目摘要

Project Summary/Abstract Understanding how mutations affect protein structure significantly impacts drug discovery, protein engineering, and the interpretation of individual genome sequences. However, the effects of many mutations, whether they are beneficial or deleterious, cannot be understood from static protein structures alone. This problem is especially significant for mutations that are located far away from active sites and interaction surfaces. If these mutations do not have obvious large stability costs and are remote from functional sites, how can they influence protein function? Rather than affecting the average structure defined by traditional X-ray crystallography, this proposal determines how mutations may change the relative population of alternative conformations. However, identifying alternative conformations and measuring their impact on protein function represents an experimental challenge. To address these problems, this project builds on my methodological advances to reveal alternative conformations by room temperature X-ray crystallography and electron density sampling. I will study the protein-protein interactions of ubiquitin (Ub) in S. cerevisiae as a model to understand how perturbing the relative populations of conformations impacts molecular recognition. Ub is an ideal model to study the importance of alternative conformations because: previous studies have indicated that diverse Ub conformations and poly-Ub linkages mediate distinct functional roles; its remarkable sequence and functional conservation suggests that the populations of alternative conformations will be particularly susceptible to mutation; and it is a small protein that can be comprehensively mutated. Moreover, I have generated preliminary high-resolution room temperature X-ray data that complement previous NMR experiments to define its accessible alternative conformations. Despite the central importance of different Ub conformations for the cell, the general principles of how different Ub conformations are recognized and direct the assembly of poly-Ub chains remain to be elucidated. To determine how mutations can affect the assembly of specific poly-Ub chains, I will monitor how alternative side chain conformations of Ub participate in the catalytic mechanism of the E2 Ubc1. To test how mutations afect Ub interactions in vivo, I will measure a unique phenotypic profile for each Ub mutant. The central role of Ub in proteostasis and its sequence conservation suggest that the principles I uncover will be widely applicable across all eukaryotes. By measuring the impact of mutation on the conformational ensemble, this proposal addresses fundamental biophysical models of interaction specificity, the organization of the Ub-interaction network, and the molecular mechanisms of phenotypic change. Predictions of how mutation can change the relative populations of conformations are especially important as increased sequencing efforts provide the genetic basis for rare genetic diseases. This project will improve our knowledge and understanding of the relationship between mutation, alternative conformations, and phenotype.

项目总结/文摘