与功能相关的膜蛋白动力学:整合生物信息学,分子动力学和单分子FRET
bioRxiv : the preprint server for biology
|June 12, 2025
概括
我们开发了一种结合结构生物信息学,分子模拟和单分子FRET显微镜的新方法,观察完整膜蛋白在与连接体结合时如何改变形状,帮助药物发现.
科学领域:
- 膜蛋白的结构生物学和生物物理学.
- Prokaryotic 糖核合物生物合成途径.
- 蛋白质-连接体相互作用和形状动态.
背景情况:
- 整体膜蛋白在生物过程中起着至关重要的作用,理解它们的结构功能关系对于药物开发至关重要.
- 细菌糖结合物生物合成途径是新型抗生素的有吸引力的目标,因为它们的重要作用和独特的生物化学特性.
- 由于蛋白质,脂质和碳水化合物的复杂相互作用,对这些系统的特征提出了挑战.
研究的目的:
- 为了研究小型单一型糖酶转移酶 (SmPGT) 超级家族成员的依赖连接体的构造动态.
- 为了将结构特征与观察到的动力学相关联,并验证它们在连接体结合中的作用.
- 建立一个多功能平台,以研究与原生细胞类似的膜环境中的蛋白质动态.
主要方法:
- 整合结构生物信息学,全原子分子模拟和单分子福斯特共振能量转移 (smFRET) 显微镜.
- 开发一个使用选择性氨酸标记,非正规氨基酸突变发生和点击化学用于双标记PglC变体的平台.
- 修改后的蛋白质溶解成 styrene 酸 liponanoparticles (SMALPs) 以模仿原生膜环境.
主要成果:
- 在SmPGT超级家族中识别基质特异性的结构特征.
- 这些特征与在分子模拟中观察到的依赖联体的形状动态的相关性.
- 使用smFRET-SMALP技术实验验证蛋白质运动在连接体结合中的作用.
- 证明在与抑制剂结合时发生的PglC构造变化与抑制剂强度相关.
结论:
- 开发的smFRET-SMALP策略有效地监测了整体膜蛋白的形状动态.
- 这种方法为SmPGT超级家族的联结机制和抑制功效提供了洞察力.
- 该方法适用于研究具有不同基质特异性的其他SmPGT成员,支持基于结构的药物设计.
相关概念视频
Protein Dynamics in Living Cells
2.1K
Different fluorescence-based techniques are used to study the protein dynamics in living cells. These techniques include FRAP, FRET, and PET.
Fluorescent recovery after photobleaching (FRAP) is a fluorescent-protein-based detection technique used to quantify protein movement rates within the cell. This method exposes a small portion of the cell to an intense laser beam. The laser beam causes permanent photobleaching of the fluorophore-tagged proteins in the exposed region. As the bleached...
Fluorescent recovery after photobleaching (FRAP) is a fluorescent-protein-based detection technique used to quantify protein movement rates within the cell. This method exposes a small portion of the cell to an intense laser beam. The laser beam causes permanent photobleaching of the fluorophore-tagged proteins in the exposed region. As the bleached...
2.1K
Protein Diffusion in the Membrane
4.3K
Proteins show rotational as well as lateral diffusion across the membrane. The lateral diffusion of proteins was confirmed through the cell fusion experiment where mouse and human cells were fused, resulting in hybrid cells. When the human and mouse cells fused, the specific membrane proteins on human and mouse cells were marked with the red and green-fluorescent markers, respectively. Initially, the red and green fluorescence was located on the respective hemisphere of the cell. As time...
4.3K
Membrane Fluidity
11.0K
Membrane fluidity is explained by the fluid mosaic model of the cell membrane, which describes the plasma membrane structure as a mosaic of components—including phospholipids, cholesterol, proteins, and carbohydrates—that gives the membrane a fluid character.
Mosaic nature of the membrane
The mosaic characteristic of the membrane helps the plasma membrane remain fluid. The integral proteins and lipids exist as separate but loosely-attached molecules in the membrane. The membrane is...
Mosaic nature of the membrane
The mosaic characteristic of the membrane helps the plasma membrane remain fluid. The integral proteins and lipids exist as separate but loosely-attached molecules in the membrane. The membrane is...
11.0K
Mechanisms of Membrane-bending
2.6K
The living membranes are flexible due to their fluid mosaic nature; however, their bending into different shapes is an active process regulated by specific lipids and proteins. The membrane bending can be transient as seen in vesicles or stable for a long time as in microvilli. Cells regulate the size, location, and duration of the membrane curvature.
Membrane bending can happen due to intrinsic changes in lipid composition or extrinsic association with different proteins. The proteins involved...
Membrane bending can happen due to intrinsic changes in lipid composition or extrinsic association with different proteins. The proteins involved...
2.6K


