分子洞察 DNA 中的 DndCDE 复合体对 DNA 酸化的识别
Wencheng Fu1, Yuli Wang1, Yashi Ge2
1State Key Laboratory of Microbial Metabolism, School of Life Sciences & Biotechnology, the Joint International Research Laboratory of Metabolic & Developmental Sciences MOE, Shanghai Jiao Tong University, Shanghai 200240, China.
International journal of molecular sciences
|June 26, 2025
概括
细菌中的DNA降解 (Dnd) CDE复合体使用DndC来识别DNA序列的酸化 (PT) 修饰,这是对外来DNA入侵的关键防御机制.
科学领域:
- 分子生物学分子生物学
- 生物化学 生物化学
- 结构生物学 结构生物学
背景情况:
- Prokaryotes 使用 DNA 降解 (Dnd) CDE 蛋白质复合体, DndA / IscS 和 DndFGH 复合体作为对非自我 DNA 的防御系统.
- DndCDE复合体对于DNA酸化 (PT) 修饰至关重要,它催化了DNA上的氧硫交换.
- 目前对DndCDE复合体的结构和功能的知识有限.
研究的目的:
- 预测DndCDE复合体及其与DNA的复合体的结构.
- 阐明DNA识别和复杂组合背后的分子机制.
- 了解个体成分在DNA化中的作用.
主要方法:
- 用蛋白质结构预测来建模DndCDE复合体和DNA-DndCDE复合体.
- 使用正常模式分析来研究DndCDE复合体的动态行为.
- 为了验证,使用纯化的蛋白质进行了生物化学测试.
主要成果:
- DndC,特别是它的"特异性循环",被认为是识别共识PT修改序列的关键组件.
- 建议在DndD上保留结构表面,以调解DndD二元化和DndCDE复合体组合.
- 动态分析揭示了DndCDE复合体的闭合和开放状态之间的过渡,促进了DNA结合和释放.
结论:
- 这项研究为DndCDE复合体的组装和DNA识别机制提供了分子洞察力.
- DndC在DNA酸化的序列特异性中起着至关重要的作用.
- DndCDE复合体的动态性质对于其在DNA修饰中的功能至关重要.
相关概念视频
01:16The DNA Helix
144.3K
Overview
144.3K
01:03Single-Strand DNA Binding Proteins
15.1K
For successful DNA replication, the unwinding of double-stranded DNA must be accompanied by stabilization and protection of the separated single strands of the DNA. This crucial task is performed by single-strand DNA-binding (SSB) proteins. They bind to the DNA in a sequence-independent manner, which means that the nitrogenous bases of the DNA need not be present in a specific order for binding of SSB proteins to it. The binding of SSB proteins straightens single-stranded DNA (ssDNA) and makes...
15.1K
01:01Phosphodiester Linkages
103.9K
Overview
Phosphodiester bond forms when a phosphoric acid molecule (H3PO4) links with two hydroxyl groups (–OH) of two other molecules, forming two ester bonds. Two water molecules are released in this process. The phosphodiester bond is commonly found in nucleic acids (DNA and RNA) and plays a critical role in their structure and function.
Phosphodiester Bonds Link Nucleotides Together
DNA and RNA are polynucleotides or long chains of nucleotides that are linked together. A nucleotide is...
Phosphodiester bond forms when a phosphoric acid molecule (H3PO4) links with two hydroxyl groups (–OH) of two other molecules, forming two ester bonds. Two water molecules are released in this process. The phosphodiester bond is commonly found in nucleic acids (DNA and RNA) and plays a critical role in their structure and function.
Phosphodiester Bonds Link Nucleotides Together
DNA and RNA are polynucleotides or long chains of nucleotides that are linked together. A nucleotide is...
103.9K
01:25Nucleic Acid Structure
7.2K
The pentose sugar in DNA is deoxyribose, while in RNA the pentose sugar is ribose. The difference between the sugars is the presence of the hydroxyl group on the ribose's second carbon and a hydrogen on the deoxyribose's second carbon. The phosphate residue attaches to the hydroxyl group of the 5′ carbon of one sugar and the hydroxyl group of the 3′ carbon of the sugar of the next nucleotide, which forms a 5′ to 3′ phosphodiester linkage.
DNA Structure
DNA...
DNA Structure
DNA...
7.2K
03:31Labeling DNA Probes
8.4K
DNA probes are fragments of DNA labeled with a reporter tag to enable their detection or purification. The resulting labeled DNA probes can then hybridize to target nucleic acid sequences through complementary base-pairing, and may be used to recover or identify these regions.
Radioisotopes, fluorophores, or small molecule binding partners like biotin or digoxigenin, are the most widely used reporter tags for labeling DNA probes. These labels can be attached to the probe DNA molecule via...
Radioisotopes, fluorophores, or small molecule binding partners like biotin or digoxigenin, are the most widely used reporter tags for labeling DNA probes. These labels can be attached to the probe DNA molecule via...
8.4K