单分子荧光共振能量转移技术是通过检测单个分子内的荧光供体及受体间荧光能量转移的效率来研究分子构象的变化.要得到这些生物大分子的信息就需要对大量的单分子信号进行统计分析,人工分析这些信息,既费时费力又不具备客观性和可重复性...单分子荧光共振能量转移技术是通过检测单个分子内的荧光供体及受体间荧光能量转移的效率来研究分子构象的变化.要得到这些生物大分子的信息就需要对大量的单分子信号进行统计分析,人工分析这些信息,既费时费力又不具备客观性和可重复性,因此本文将小波变换及滚球算法应用到单分子荧光能量共振转移图像中对单分子信号进行统计分析.在保证准确检测到单分子信号的前提下,文章对滚球算法和小波变换算法处理图像后的线性进行了分析,结果表明,滚球算法和小波变换算法不但能够很好地去除单分子FRET图像的背景噪声,同时还能很好地保持单分子荧光信号的线性.最后本文还利用滚球算法处理单分子FRET图像及统计15 bp DNA的FRET效率的直方图,通过计算得到了15 bp DNA的FRET效率值.展开更多
Elongation factor 4（EF4） is one of the highly conserved translational GTPases, whose functions are largely unknown. Structures of EF4 bound ribosomal PRE-translocation and POST-translocation complexes have both been...Elongation factor 4（EF4） is one of the highly conserved translational GTPases, whose functions are largely unknown. Structures of EF4 bound ribosomal PRE-translocation and POST-translocation complexes have both been visualized. On top of cellular, structural, and biochemical studies, several controversial models have been raised to rationalize functions of EF4. However, how EF4 modulates elongation through its interactions with ribosomes has not been revealed. Here, using single-molecule fluorescence resonance energy transfer assays, we directly captured short-lived EF4·GTP bound ribosomal PRE and POST translocation complexes, which may adopt slightly different conformations from structures prepared using GDP, GDPNP, or GDPCP. Furthermore, we revealed that EF4·GTP severely impairs delivery of aminoacyl-tRNA into the A-site of the ribosome and moderately accelerates translocation. We proposed that functions of EF4 are to slow overall elongation and to stall majority of ribosomes in POST states under stress conditions.展开更多
Biomolecular systems,such as proteins,crucially rely on dynamic processes at the nanoscale.Detecting biomolecular nanodynamics is therefore key to obtaining a mechanistic understanding of the energies and molecular dr...Biomolecular systems,such as proteins,crucially rely on dynamic processes at the nanoscale.Detecting biomolecular nanodynamics is therefore key to obtaining a mechanistic understanding of the energies and molecular driving forces that controlbiomolecular systems.Single-molecule fluorescence resonance energy transfer(smFRET)is a powerful technique to observe inreal-time how a single biomolecule proceeds through its functional cycle involving a sequence of distinct structural states.Currently,this technique is fundamentally limited by irreversible photobleaching,causing the untimely end of the experiment andthus,a narrow temporal bandwidth of≤3 orders of magnitude.Here,we introduce“DyeCycling”,a measurement scheme withwhich we aim to break the photobleaching limit in smFRET.We introduce the concept of spontaneous dye replacement bysimulations,and as an experimental proof-of-concept,we demonstrate the intermittent observation of a single biomolecule forone hour with a time resolution of milliseconds.Theoretically,DyeCycling can provide>100-fold more information per singlemolecule than conventional smFRET.We discuss the experimental implementation of DyeCycling,its current and fundamentallimitations,and specific biological use cases.Given its general simplicity and versatility,DyeCycling has the potential torevolutionize the field of time-resolved smFRET,where it may serve to unravel a wealth of biomolecular dynamics by bridgingfrom milliseconds to the hour range.展开更多
基金supported by a grant from The National Natural Science Foundation of China(31300701)~~
文摘单分子荧光共振能量转移技术是通过检测单个分子内的荧光供体及受体间荧光能量转移的效率来研究分子构象的变化.要得到这些生物大分子的信息就需要对大量的单分子信号进行统计分析,人工分析这些信息,既费时费力又不具备客观性和可重复性,因此本文将小波变换及滚球算法应用到单分子荧光能量共振转移图像中对单分子信号进行统计分析.在保证准确检测到单分子信号的前提下,文章对滚球算法和小波变换算法处理图像后的线性进行了分析,结果表明,滚球算法和小波变换算法不但能够很好地去除单分子FRET图像的背景噪声,同时还能很好地保持单分子荧光信号的线性.最后本文还利用滚球算法处理单分子FRET图像及统计15 bp DNA的FRET效率的直方图,通过计算得到了15 bp DNA的FRET效率值.
基金supported by funds from the National Natural Science Foundation of China (No. 31570754)Tsinghua-Peking Joint Center for Life Sciences and Beijing Advanced Innovation Center for Structural Biology to C. ChenLab Innovation Funding from Lab and Instrument Department, Tsinghua University to W. Wang
文摘Elongation factor 4（EF4） is one of the highly conserved translational GTPases, whose functions are largely unknown. Structures of EF4 bound ribosomal PRE-translocation and POST-translocation complexes have both been visualized. On top of cellular, structural, and biochemical studies, several controversial models have been raised to rationalize functions of EF4. However, how EF4 modulates elongation through its interactions with ribosomes has not been revealed. Here, using single-molecule fluorescence resonance energy transfer assays, we directly captured short-lived EF4·GTP bound ribosomal PRE and POST translocation complexes, which may adopt slightly different conformations from structures prepared using GDP, GDPNP, or GDPCP. Furthermore, we revealed that EF4·GTP severely impairs delivery of aminoacyl-tRNA into the A-site of the ribosome and moderately accelerates translocation. We proposed that functions of EF4 are to slow overall elongation and to stall majority of ribosomes in POST states under stress conditions.
基金supported by the National Natural Science Foundation of China(20733001,20973015)National Key Basic Research Program of China(973)(2006CB910300,2010CB912302)~~
文摘Biomolecular systems,such as proteins,crucially rely on dynamic processes at the nanoscale.Detecting biomolecular nanodynamics is therefore key to obtaining a mechanistic understanding of the energies and molecular driving forces that controlbiomolecular systems.Single-molecule fluorescence resonance energy transfer(smFRET)is a powerful technique to observe inreal-time how a single biomolecule proceeds through its functional cycle involving a sequence of distinct structural states.Currently,this technique is fundamentally limited by irreversible photobleaching,causing the untimely end of the experiment andthus,a narrow temporal bandwidth of≤3 orders of magnitude.Here,we introduce“DyeCycling”,a measurement scheme withwhich we aim to break the photobleaching limit in smFRET.We introduce the concept of spontaneous dye replacement bysimulations,and as an experimental proof-of-concept,we demonstrate the intermittent observation of a single biomolecule forone hour with a time resolution of milliseconds.Theoretically,DyeCycling can provide>100-fold more information per singlemolecule than conventional smFRET.We discuss the experimental implementation of DyeCycling,its current and fundamentallimitations,and specific biological use cases.Given its general simplicity and versatility,DyeCycling has the potential torevolutionize the field of time-resolved smFRET,where it may serve to unravel a wealth of biomolecular dynamics by bridgingfrom milliseconds to the hour range.
