在DNA连接纳米颗粒中的乙醇诱导的冷凝和脱凝:冷凝状态的核体样模型
Qinsi Xiong1, One-Sun Lee1, Chad A Mirkin1,2,3
1Department of Chemistry, Northwestern University, Evanston, Illinois60208-3113, United States.
Journal of the American Chemical Society
|December 27, 2022
概括
乙醇通过增强静电相互作用,诱导纳米颗粒晶体中的DNA凝聚,形成类似于核体的结构. 这种原子的洞察力澄清了DNA的行为,并有助于实验解释.
科学领域:
- 纳米技术
- 生物物理
- 计算化学
背景情况:
- 乙醇凝结用于调整与DNA结合的纳米粒子晶体.
- 这些晶体中乙醇诱导的DNA键变化的机制尚不清楚.
研究的目的:
- 通过分子动力学探索DNA凝聚和脱凝的自由能量场景.
- 提供对纳米粒子系统中乙醇对DNA键的影响的原子学理解.
主要方法:
- 全原子分子动力学 (MD) 模拟.
- 免费能源的风景分析.
- 对DNA的形态分析 (B型与A型).
主要成果:
- 在80%的乙醇中,由于增强的静电相互作用,DNA凝结在能量方面是有利的.
- 凝聚的DNA在乙醇中采用A型,在水中采用B型.
- 一种类似于核子体的超模型准确地预测了凝聚的DNA键长度.
结论:
- 乙醇增强了静电相互作用,导致DNA凝结.
- DNA 构造 (B 形式与 A 形式) 不会受到更高阶转换的影响.
- 拟议的核体样模型有助于解释纳米粒子系统中DNA凝聚的实验数据.
相关概念视频
Chromatin Packaging
16.8K
Each human somatic cell contains 6 billion base pairs of DNA. Each base pair is 0.34 nm long, meaning each diploid cell contains a staggering 2 meters of DNA. This long DNA strand is packed inside a nucleus measuring only 10-20 microns in diameter with the help of specialized DNA-binding proteins called histones. Together they form a compact DNA-protein complex called chromatin. The chromatin is further compacted into higher-order structures. The highest level of compaction is achieved during...
16.8K
Condensins
3.6K
Condensins are large protein complexes that use ATP to fuel the assembly of chromosomes during mitosis. They transform the tangled, shapeless mass of post-interphase DNA into individualized chromosomes by compacting, organizing, and segregating chromosomal DNA.
The plant and animal cells contain two types of condensin complexes—condensin I and condensin II. Both complexes have five subunits: two SMC (Structural Maintenance of Chromosomes) subunits, a kleisin subunit, and two HEAT-repeat...
The plant and animal cells contain two types of condensin complexes—condensin I and condensin II. Both complexes have five subunits: two SMC (Structural Maintenance of Chromosomes) subunits, a kleisin subunit, and two HEAT-repeat...
3.6K
Genomic DNA in Eukaryotes
47.3K
Eukaryotes have large genomes compared to prokaryotes. To fit their genomes into a cell, eukaryotic DNA is packaged extraordinarily tightly inside the nucleus. To achieve this, DNA is tightly wound around proteins called histones, which are packaged into nucleosomes that are joined by linker DNA and coil into chromatin fibers. Additional fibrous proteins further compact the chromatin, which is recognizable as chromosomes during certain phases of cell division.
47.3K
Nucleosome Remodeling
9.3K
Nucleosomes are the basic units of chromatin compaction. Each nucleosome consists of the DNA bound tightly around a histone core, which makes the DNA inaccessible to DNA binding proteins such as DNA polymerase and RNA polymerase. Hence, the fundamental problem is to ensure access to DNA when appropriate, despite the compact and protective chromatin structure.
Nucleosome remodeling complex
Eukaryotic cells have specialized enzymes called ATP-dependent nucleosome remodeling enzymes. These enzymes...
Nucleosome remodeling complex
Eukaryotic cells have specialized enzymes called ATP-dependent nucleosome remodeling enzymes. These enzymes...
9.3K
DNA Packaging
103.0K
Overview
103.0K
The Nucleosome
16.5K
DNA in a human cell is almost 2m long and it is packed inside a tiny nucleus that is only a few microns in diameter. The level of compaction of DNA inside the nucleus is astonishing. It is organized into several sequentially higher levels of compaction to fit into such a tiny space. The most compact form of DNA is a chromosome that can be seen under a microscope in a dividing cell.
DNA is wound twice around a protein complex called histone core, that consist of 8 histone proteins. This complex...
DNA is wound twice around a protein complex called histone core, that consist of 8 histone proteins. This complex...
16.5K


