一种聚马病毒酶活性模型,部分来源于SV40 T-抗原的AlphaFold2结构
Jong Shin1, Gretchen Meinke2, Alex A Bohm2
1Department of Molecular Metabolism, Harvard T.H. Chan School of Public Health, Boston, Massachusetts, USA.
Journal of virology
|September 23, 2024
概括
研究人员使用AlphaFold2来建模SV40 T-抗原酶,揭示了复制分叉时DNA解的关键特征. 这种结构性洞察力提出了一个"绳索爬行者"机制,这对于病毒DNA复制至关重要.
科学领域:
- 结构生物学是结构生物学.
- 病毒学 病毒学
- 分子机制的分子机制
背景情况:
- 病毒螺旋酶,如多重病毒SF3螺旋酶,对于DNA复制至关重要,但它们的解机制仍然不清楚.
- SV40 T-抗原 (T-ag) 作为研究这些过程的模型酶.
- 了解螺旋酶功能对于理解DNA瘤病毒复制至关重要.
研究的目的:
- 使用AlphaFold2.2. 确定SV40 T-抗原 (T-ag) 酶的结构.
- 分析复制分叉中对T-ag酶活性至关重要的结构特征.
- 提出T-ag和相关螺旋酶使用的DNA解机制模型.
主要方法:
- 使用AlphaFold2来确定SV40T抗原 (T-ag) 的全长结构.
- 分析了结构模型与螺旋酶活动相关的特征,包括起源绑定域 (OBD) 接近性和表面残留物分布.
- 综合核磁共振 (NMR) 和计算建模实验.
主要成果:
- 阿尔法Fold2模型揭示了T-ag起源绑定域 (OBD) 与复制分叉的接近.
- 分析突出了OBD表面的基本残留在DNA解中的作用.
- 在T-ag OBD上的质子化histidines被确定为解过程的关键,这一发现扩展到其他螺旋酶家族.
- 为T-ag螺旋酶活性提出了一个"绳索爬行者"模型,涉及N端OBD和C端螺旋酶域.
结论:
- 在复制分叉时,T-ag OBD 在解DNA方面发挥着重要作用.
- 质子化histidines对于T-ag的螺旋酶活性和潜在的其他病毒和真核生物螺旋酶至关重要.
- 拟议的"绳索爬行者"模型为了解病毒螺旋体如何与DNA相互作用和解提供了一个框架.
更多相关视频
06:03Use of Viral Entry Assays and Molecular Docking Analysis for the Identification of Antiviral Candidates against Coxsackievirus A16
Published on: July 15, 2019
7.9K
10:50Assessment of Immunologically Relevant Dynamic Tertiary Structural Features of the HIV-1 V3 Loop Crown R2 Sequence by ab initio Folding
Published on: September 15, 2010
9.6K
相关概念视频
DNA Helicases
21.2K
DNA unwinding helicase enzymes are a type of motor protein. Motor proteins can translocate along filaments or polymers using energy generated from ATP hydrolysis. Helicases are involved in all the important cellular processes where DNA unwinding is required, such as DNA replication, repair, recombination, and transcription. They are present in all living organisms, but vary in their structure, function, and mechanism of action. For example, in prokaryotes, DnaB helicase binds and translocates...
21.2K
ATP Synthase: Structure
12.0K
ATP synthase or ATPase is among the most conserved proteins found in bacteria, mammals, and plants. This enzyme can catalyze a forward reaction in response to the electrochemical gradient, producing ATP from ADP and inorganic phosphate. ATP synthase can also work in a reverse direction by hydrolyzing ATP and generating an electrochemical gradient. Different forms of ATP synthases have evolved special features to meet the specific demands of the cell. Based on their specific feature, ATP...
12.0K
Single-Strand DNA Binding Proteins
14.0K
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...
14.0K
Protein Complex Assembly
10.6K
Proteins can form homomeric complexes with another unit of the same protein or heteromeric complexes with different types. Most protein complexes self-assemble spontaneously via ordered pathways, while some proteins need assembly factors that guide their proper assembly. Despite the crowded intracellular environment, proteins usually interact with their correct partners and form functional complexes.
Many viruses self-assemble into a fully functional unit using the infected host cell to...
Many viruses self-assemble into a fully functional unit using the infected host cell to...
10.6K
