绕过微阵列中蛋白质多样性所造成的问题:对蛋白质相互作用网络的含义
Andrew Gordus1, Gavin MacBeath
1Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, Massachusetts 02138, USA.
Journal of the American Chemical Society
|October 19, 2006
概括
由于物理性质的变化,蛋白质微阵列可能不准确地表示蛋白质相互作用. 获得和结合曲线为可靠的蛋白相互作用网络分析提供了准确的定量数据.
科学领域:
- 生物化学 生物化学
- 分子生物学分子生物学
- 系统生物学 系统生物学
背景情况:
- 蛋白质微阵列是研究蛋白质-蛋白质相互作用的高通量工具.
- 蛋白质物理性质的变化可能会导致像微阵列这样的标准化试验的结果产生偏差.
- 简单的基于值的分析可以导致误导的二进制交互网络.
研究的目的:
- 为了研究微阵列上的蛋白相互作用域的可变性.
- 评估表面密度变化对相互作用数据的影响.
- 确定从蛋白质微阵列中获得准确的定量数据的方法.
主要方法:
- 在均度下打印单体Src同质2 (SH2) 域.
- 执行基于值的结合测试,使用光标记的光.
- 获得蛋白质-类相互作用的和结合曲线.
主要成果:
- 单体SH2域在相同度下打印时,活性表面密度变化高达50倍.
- 基于值的测定产生了误导性的生物物理相互作用数据.
- 来自和曲线的平衡分离常数独立于表面密度.
结论:
- 蛋白质物理性质的变化显著影响基于微阵列的相互作用研究.
- 使用和结合曲线的定量分析克服了表面密度偏差.
- 未来的大规模蛋白质相互作用网络研究应优先采集定量数据.
相关概念视频
Protein-protein Interfaces
Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. Most PPIs are stabilized by numerous weak noncovalent chemical forces. The physical shape of the interfaces determines the way two proteins interact. Many globular proteins have closely-matching shapes on their surfaces, which form a large number of weak bonds. Additionally, many PPIs occur between two helices or between a surface cleft and a polypeptide...
Protein Complexes with Interchangeable Parts
Groups of proteins may form a complex where each protein in this complex has a different role in the overall execution of the complex’s function. Often some of the proteins in the complex can be replaced by a closely related variant to give a complex that contains many of the same components yet is functionally distinct.
The SCF ubiquitin ligase is a protein complex of five individual proteins. This complex attaches ubiquitin to other target proteins to mark them for degradation. In order to...
The SCF ubiquitin ligase is a protein complex of five individual proteins. This complex attaches ubiquitin to other target proteins to mark them for degradation. In order to...
Protein Networks
An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
Protein-Protein Interfaces
Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. Most PPIs are stabilized by numerous weak noncovalent chemical forces. The physical shape of the interfaces determines the way two proteins interact. Many globular proteins have closely-matching shapes on their surfaces, which form a large number of weak bonds. Additionally, many PPIs occur between two helices or between a surface cleft and a polypeptide...
Protein Complexes with Interchangeable Parts
Groups of proteins may form a complex where each protein in this complex has a different role in the overall execution of the complex’s function. Often some of the proteins in the complex can be replaced by a closely related variant to give a complex that contains many of the same components yet is functionally distinct.
The SCF ubiquitin ligase is a protein complex of five individual proteins. This complex attaches ubiquitin to other target proteins to mark them for degradation. In order to...
The SCF ubiquitin ligase is a protein complex of five individual proteins. This complex attaches ubiquitin to other target proteins to mark them for degradation. In order to...
Protein Networks
An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...


