CONFORMATIONAL ANALYSIS OF RIBOSWITCH APTAMERS BY SAXS

通过 SAXS 对核糖核酸适体进行构象分析

• 批准号: 8361281
• 负责人: Nathan Baird
• 金额: $ 0.99万
• 依托单位: ILLINOIS INSTITUTE OF TECHNOLOGY
• 依托单位国家: 美国
• 财政年份: 2011
• 资助国家: 美国
• 起止时间: 2011-01-01 至 2011-12-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8361281
• 关键词: Bacteria; Binding; Biophysics; Conserved Sequence; Eukaryota; Funding; Genetic Transcription; Grant; In Vitro; Messenger RNA; National Center for Research Resources; Nature; Paper; Phylogenetic Analysis; Polyadenylation; Principal Investigator; Publications; Publishing; RNA; RNA Splicing; Regulator Genes; Research; Research Infrastructure; Resources; Roentgen Rays; Sequence Analysis; Source; Techniques; Translations; United States National Institutes of Health; aptamer; cost; follow-up; mRNA Precursor; response; small molecule

This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. Primary support for the subproject and the subproject's principal investigator may have been provided by other sources, including other NIH sources. The Total Cost listed for the subproject likely represents the estimated amount of Center infrastructure utilized by the subproject, not direct funding provided by the NCRR grant to the subproject or subproject staff. Current year GUP-21939: This GUP is a follow-up to GUP11627(2008) and GUP12457 (2009) in which we examined the proposed general features of riboswitch conformational change upon binding cognate small-molecules. Riboswitches are gene-regulatory mRNA domains that respond to the intracellular concentration of their cognate small molecules by modulating transcription or translation in bacteria and pre-mRNA splicing or polyadenylation in eukaryotes. For all riboswitch classes examined, phylogenetic sequence analyses delineate a segment of highly conserved sequence that is necessary and sufficient for specific in vitro binding to their cognate metabolites. These specific binding domains, or aptamers, have been the central focus of studies investigating riboswitch mechanism and function. Conformational changes are thought to be an integral part of riboswitch function. Small angle X-ray scattering is a technique to probe the global nature of such conformational changes. Recently, several labs have published papers utilizing this technique to understand the metabolite-induced structural response of several riboswitch RNA. The current proposal is related to GUP12457 and GUP11627, both entitled "Investigating the proposed 'switching' mechanism of various riboswitches". The previous GUPs, for which beamtime was allocated, focused on examining the proposed general features of riboswitch function. SAXS analyses revealed idiosyncratic responses of various riboswitches to their respective small-molecule effectors as described in our recent publications (Baird and Ferre-D'Amare, RNA, 2010; Kulshina et al, NSMB, 2009).

该副本是利用资源的众多研究子项目之一 由NIH/NCRR资助的中心赠款提供。对该子弹的主要支持 而且，副投影的主要研究员可能是其他来源提供的 包括其他NIH来源。 列出的总费用可能 代表subproject使用的中心基础架构的估计量， NCRR赠款不直接向子弹或副本人员提供的直接资金。 当前GUP-21939：此GUP是GUP11627（2008）和GUP12457（2009）的后续行动，其中我们检查了结合同源小分子时核糖开关构象变化的拟议一般特征。 核糖开关是基因调节的mRNA结构域，通过调节真核生物中细菌的转录或翻译以及MRNA剪接或多腺苷酸化来响应其同源小分子的细胞内浓度。 对于所有检查的核糖开关类别，系统发育序列分析描述了一个高度保守序列的段，这对于特定体外结合与其同源代谢物是必要且足够的。 这些特定的结合结构域或适体是研究核糖开关机制和功能的研究的主要重点。 构象变化被认为是Riboswitch功能不可或缺的一部分。 小角度X射线散射是一种探测这种构象变化的全球性质的技术。 最近，一些实验室发表了使用该技术来理解代谢物诱导的几种核糖开关RNA的结构反应的论文。 当前的建议与GUP12457和GUP11627有关，均标题为“研究各种核糖开关的拟议'开关'机制”。 以前的GUP分配了Beamtime，重点是检查Riboswitch功能的一般特征。 SAXS分析表明，如我们最近的出版物所述，各种核糖开关对各自的小分子效应子的特质反应（Baird和Ferre-D'amare，RNA，RNA，2010； Kulshina等，NSMB，NSMB，2009）。