由聚氨酸形成的自发纤维;不连续的分子动力学模拟
1Department of Chemical Engineering, North Carolina State University, Raleigh, NC 27695-7905, USA.
Journal of the American Chemical Society
|February 9, 2006
概括
分子动力学模拟揭示了Ac-KA(14) K-NH(2) 是如何形成β片纤维的. 的度和温度极大地影响纤维的形成,疏水性相互作用有利于无形聚合物而不是纤维.
科学领域:
- 生物物理学的生物物理.
- 计算化学计算化学
- 神经科学是一个神经科学.
背景情况:
- 带有β片结构的纤维状蛋白质聚合物与神经退行性疾病有关.
- 了解纤维细胞形成的分子机制对于疾病干预至关重要.
研究的目的:
- 用分子动力学模拟来研究纤维的形成.
- 探索度,温度和相互作用强度对纤维细胞组合的影响.
主要方法:
- 对Ac-KA(14) K-NH(2) 进行了不连续的分子动力学模拟.
- 使用了一个非网格,隐含溶剂,中间分辨率模型 (PRIME).
- 模拟对的度 (12-96个) 和温度进行了变化.
主要成果:
- 的自我组装成α螺旋环或β片取决于度和温度.
- 纤维细胞的形成发生在高度的临界温度以上,随着度的增加而下降.
- 模拟纤维具有与实验观测一致的结构特征 (片数,分离,平行排列).
- 与键相对较强的疏水相互作用促进无形聚合物而不是纤维.
结论:
- 的度和温度是Ac-KA(14) K-NH(2) 自组合通路的关键决定因素.
- 该研究提供了与神经退行性疾病相关的纤维细胞形成的分子层次理解.
- 疏水性相互作用在决定蛋白质聚合物的形态学方面发挥着重要作用.
相关概念视频
Actin Polymerization
Actin polymerization occurs through the head-to-tail association of binding sites on monomeric actin or G-actin to form filamentous or F-actin. The polymerization can be divided into three phases ̶ nucleation, elongation, and steady-state phase.
The nucleation phase involves forming a stable nucleus consisting of three actin monomers to form a new actin filament. Actin-binding proteins such as formins and Arp2/3 complex help filament growth post-nucleation. The Formins form straight actin...
The nucleation phase involves forming a stable nucleus consisting of three actin monomers to form a new actin filament. Actin-binding proteins such as formins and Arp2/3 complex help filament growth post-nucleation. The Formins form straight actin...
Generation of Straight or Branched Actin Filaments
The straight or branched structure formation of actin filaments is controlled by nucleating proteins such as the formins and Arp2/3 complex. Formin-mediated assembly results in straight filaments, whereas Arp2/3 protein complex-mediated assembly results in branched actin filaments.
Arp2/3 Complex
Arp2/3 complex is a seven-subunit complex consisting of two proteins similar to actin- Arp2 and Arp3, and five other subunits that help keep Arp2 and Arp3 inactive. When required, the complex is...
Arp2/3 Complex
Arp2/3 complex is a seven-subunit complex consisting of two proteins similar to actin- Arp2 and Arp3, and five other subunits that help keep Arp2 and Arp3 inactive. When required, the complex is...
Formation of Higher-order Actin Filaments
The polymerization of G-actin monomers into filamentous F-actin is a multi-step process. Once the F-actins are formed, they can bundle together in different arrangements to form higher-order networks and regulate cellular functions. Common examples include the formation of lamellipodia and filopodia at the cell's leading edge by actin reorganization in a migrating cell. The microvilli on the brush border epithelial cells are also formed through the F-actin network.
The high-order actin networks...
The high-order actin networks...
Formation of Intermediate Filaments
Intermediate filaments are cytoskeletal proteins with higher tensile strength and flexibility than microfilaments and microtubules. Unlike the other two cytoskeletal proteins, intermediate filament formation lacks the enzymatic activity to hydrolyze nucleotides like ATP and GTP to generate energy for polymerization. Therefore, the formation of intermediate filaments is multistep self-assembly. The involvement of any accessory proteins in intermediate filament formation has not yet been reported.
Anionic Chain-Growth Polymerization: Mechanism
The mechanism for anionic chain-growth polymerization involves initiation, propagation, and termination steps. In the initiation step, a nucleophilic anion, such as butyl lithium, initiates the polymerization process by attacking the π bond of the vinylic monomer. As a result, a carbanion, stabilized by the electron‐withdrawing group, is generated. The resulting carbanion acts as a Michael donor in the propagation step and attacks the second vinylic monomer, which acts as a Michael acceptor.
Fibrous Proteins
Fibrous proteins are either long and narrow proteins or assemble to form long and thin structures. They contain repetitive units and usually consist of either alpha helices or beta sheets and, in rare cases, a mix of both. The amino acids in the primary structure often consist of repeating amino acid sequences. The role of fibrous proteins is primarily structural. Many are located in the extracellular matrix and are present in connective tissues to impart strength and joint mobility. They are...


