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Description of substrate specificity determinants in Solute Carrier Transporters

溶质载体转运蛋白中底物特异性决定因素的描述

基本信息

批准号：
8062035
负责人：
Avner Schlessinger
金额：
$ 5.3万
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：
2010
资助国家：
美国
起止时间：
2010-05-01 至 2012-04-30
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/8062035
关键词：
Accounting Anions Base Sequence Binding Sites Bioinformatics Biological Biological Assay Carrier Proteins Cations Cells Charge Chemicals Classification Classification Scheme Collaborations Complex Computing Methodologies Correlation Studies Data Disease Docking Family Future Genetic Genetic Variation Goals Homologous Gene Human Human Genome Hydrogen Bonding Individual Kinetics Ligand Binding Ligands Maps Measurement Medicine Membrane Membrane Transport Proteins Methods Modeling Molecular Mutation Organism Pharmaceutical Preparations Pharmacogenetics Point Mutation Property Protein Family Proteins Proteome Public Health Screening procedure Sequence Alignment Sequence Analysis Specificity Structural Models Structure Substrate Specificity Testing Therapeutic Tissues Toxic Environmental Substances Update Validation Variant Work base comparative improved interest member predictive modeling protein function protein structure response solute uptake virtual

项目摘要

DESCRIPTION (provided by applicant): Solute Carrier (SLC) superfamily members are membrane transporter proteins that control the uptake and efflux of solutes, including essential cellular compounds, environmental toxins and therapeutic drugs across biological membranes. The broad aim of this proposal is to contribute to our understanding of the genetic basis of variation among individuals' response to drugs (pharmacogenetics), by providing comprehensive integrated experimental and computational description of substrate specificity of this key membrane transporter superfamily. The first goal of this proposal is to identify new SLC superfamily members in the human genome and to elucidate the relationships between SLC families; this will be achieved by mapping sequence, structural and chemical features that distinguish one family from another. The classification into groups of related proteins will be useful for inferring similarities in structural and functional features (e.g., fold, ligand binding site, and molecular mechanism) of uncharacterized proteins based on their characterized aligned homologs. The classification scheme is likely to inform modeling of the SLC transporter structures - a prerequisite for describing their substrate specificities. The second goal is to describe sequence and structure determinants of substrate specificity within selected SLC families. This goal will be accomplished by combining computational methodologies such as sequence analysis, structure comparisons, comparative modeling, ligand docking, and virtual screening, with experimental efforts. The experimental work will be conducted in collaboration with other labs; it will include functional characterization using various assays including ligand uptake and kinetic measurements. The third goal is to utilize the specificity determinants information of the SLC families to develop predictive models for the effects of genetic variation on transporter function, which will be experimentally tested on clinically important substrates. Ultimately, the results obtained in this study will contribute to our understanding of why individuals respond differently to the same drug. In particular, correlation of the study results with clinically observed disease states and variation among individuals in response to drugs can be a significant step toward personalized medicine greatly benefitting public health.

描述（由申请方提供）：溶质载体（SLC）超家族成员是控制溶质（包括必需细胞化合物、环境毒素和治疗药物）跨生物膜摄取和流出的膜转运蛋白。这个建议的广泛目的是有助于我们理解个体对药物反应（药物遗传学）的遗传基础，通过提供这个关键膜转运蛋白超家族的底物特异性的全面综合实验和计算描述。该提案的第一个目标是确定人类基因组中新的SLC超家族成员，并阐明SLC家族之间的关系;这将通过绘制区分一个家族的序列，结构和化学特征来实现。将相关蛋白质分类成组将有助于推断结构和功能特征的相似性（例如，折叠、配体结合位点和分子机制）。分类方案很可能告知SLC转运蛋白结构的建模-描述其底物特异性的先决条件。第二个目标是描述选定SLC家族内底物特异性的序列和结构决定因素。这一目标将通过结合计算方法，如序列分析，结构比较，比较建模，配体对接和虚拟筛选，与实验的努力。实验工作将与其他实验室合作进行;它将包括使用各种测定的功能表征，包括配体摄取和动力学测量。第三个目标是利用SLC家族的特异性决定因素信息来开发遗传变异对转运蛋白功能影响的预测模型，该模型将在临床重要底物上进行实验测试。最终，这项研究中获得的结果将有助于我们理解为什么个体对相同药物的反应不同。特别是，研究结果与临床观察到的疾病状态和个体对药物反应的变化之间的相关性可能是朝着个性化医疗迈出的重要一步，极大地有益于公共卫生。