R3DMCS:一个网络服务器,用于在同一生物体或跨物种的实验3D结构中可视化RNA图案的结构变化
Sri Devan Appasamy1,2, Craig L Zirbel3
1Protein Data Bank in Europe, European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, United Kingdom.
Bioinformatics (Oxford, England)
|November 15, 2024
概括
一个新的Web服务器,R3DMCS,可以轻松比较和可视化RNA3D结构和图案. 该工具有助于探索RNA构造变化和跨物种和序列的结构性保护.
科学领域:
- 结构生物学 结构生物学
- 生物信息学是一种生物信息学.
- 计算生物学 计算生物学
背景情况:
- 最近RNA结构确定方面的进步导致了可用的3DRNA结构的显著增加.
- 在用户友好的工具中存在一个差距,用于在这些多个3D结构中比较和可视化RNA图案.
研究的目的:
- 推出R3DMCS,这是一款基于浏览器的新型Web服务器,旨在比较和可视化3D结构内的和跨越3D结构的RNA图案.
- 提供一个工具,以促进RNA结构动态和结构保护的探索.
主要方法:
- R3DMCS从选定的RNA结构中检索,对齐,注释,组织和显示相应核酸的3D坐标.
- 服务器允许在一个物种内对特定分子的所有3D结构进行比较,或者在属于单个Rfam家族的结构中进行比较.
主要成果:
- R3DMCS使用户能够在各种3D结构中比较RNA图案,有助于研究不同功能状态或实验条件下的构造变化.
- 该工具有助于研究跨物种的3D结构保护以及序列变异对RNA结构的影响.
结论:
- R3DMCS解决了对分析和比较RNA3D结构图案的可访问工具的需求.
- 服务器支持对RNA结构-功能关系,形状灵活性和进化保护的研究.
相关概念视频
Nucleic Acid Structure
6.0K
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...
6.0K
RNA-seq
9.8K
RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases.
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
9.8K
RNA Stability
33.3K
Intact DNA strands can be found in fossils, while scientists sometimes struggle to keep RNA intact under laboratory conditions. The structural variations between RNA and DNA underlie the differences in their stability and longevity. Because DNA is double-stranded, it is inherently more stable. The single-stranded structure of RNA is less stable but also more flexible and can form weak internal bonds. Additionally, most RNAs in the cell are relatively short, while DNA can be up to 250 million...
33.3K
Chromatin Structure and RNA Splicing
2.7K
2.7K
Structural Protein Function
2.7K
2.7K
Types of RNA
63.3K
Overview
Three main types of RNA are involved in protein synthesis: messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). These RNAs perform diverse functions and can be broadly classified as protein-coding or non-coding RNA. Non-coding RNAs play important roles in the regulation of gene expression in response to developmental and environmental changes. Non-coding RNAs in prokaryotes can be manipulated to develop more effective antibacterial drugs for human or animal use.
RNA...
Three main types of RNA are involved in protein synthesis: messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). These RNAs perform diverse functions and can be broadly classified as protein-coding or non-coding RNA. Non-coding RNAs play important roles in the regulation of gene expression in response to developmental and environmental changes. Non-coding RNAs in prokaryotes can be manipulated to develop more effective antibacterial drugs for human or animal use.
RNA...
63.3K


