Journal ArticleDOI
Protein Conformational Dynamics Probed by Single-Molecule Electron Transfer
Haw Yang,Haw Yang,Haw Yang,Guobin Luo,Guobin Luo,Guobin Luo,Pallop Karnchanaphanurach,Pallop Karnchanaphanurach,Pallop Karnchanaphanurach,Tai Man Louie,Tai Man Louie,Tai Man Louie,Ivan Rech,Ivan Rech,Ivan Rech,Sergio Cova,Sergio Cova,Sergio Cova,Luying Xun,Luying Xun,Luying Xun,X. Sunney Xie,X. Sunney Xie,X. Sunney Xie +23 more
TLDR
By probing the fluorescence lifetime of the single flavin on a photon-by-photon basis, the variation of flavin-tyrosine distance over time is observed, suggesting the existence of multiple interconverting conformers related to the fluctuating catalytic reactivity.Abstract:
Electron transfer is used as a probe for angstrom-scale structural changes in single protein molecules. In a flavin reductase, the fluorescence of flavin is quenched by a nearby tyrosine residue by means of photo-induced electron transfer. By probing the fluorescence lifetime of the single flavin on a photon-by-photon basis, we were able to observe the variation of flavin-tyrosine distance over time. We could then determine the potential of mean force between the flavin and the tyrosine, and a correlation analysis revealed conformational fluctuation at multiple time scales spanning from hundreds of microseconds to seconds. This phenomenon suggests the existence of multiple interconverting conformers related to the fluctuating catalytic reactivity.read more
Citations
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Journal ArticleDOI
Photoinduced electron transfer between flavin and tryptophan in a poly(vinyl alcohol) film
Youmin Lee,Hwiin Lee,Minyung Lee +2 more
TL;DR: In this paper, the photo-induced electron transfer of flavin-tryptophan which were embedded in polyvinyl alcohol films was investigated and it was shown that the decrease in the fluorescence lifetimes of flavins becomes significant as the tryptophan concentration increases.
Book ChapterDOI
How Biomolecular Motors Work: Synergy Between Single Molecule Experiments and Single Molecule Simulations
Martin Karplus,Jingzhi Pu +1 more
TL;DR: Underlying concepts concerning proteins involved in such machines and their motions are presented and specific biomolecular motors (kinesin and F1ATPase) are considered and how they work is described.
Journal ArticleDOI
Towards autonomous analysis of chemical exchange saturation transfer experiments using deep neural networks
TL;DR: In this paper , a deep neural network was used to predict chemical shifts of nuclei in the exchanging species directly from anti-phase 1 H N CEST profiles, along with an uncertainty associated with the predictions.
Proceedings ArticleDOI
Advanced single photon counting instrumentation for SPADs
TL;DR: In this article, a fast gated-counter and a wide-band delayer are used to acquire photons in well-defined time windows, programmable from 100 ps up to 10 ns.
Journal ArticleDOI
Numerical approximation and fast evaluation of the overdamped generalized Langevin equation with fractional noise
TL;DR: In this paper, it has been proved that with fractional Gaussian noise (fGn) mostly considered by biologists, the overdamped generalized Langevin equation satisfying fluctuation dissipation theorem can be written as a fractional stochastic differential equation (FSDE).
References
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Journal ArticleDOI
Electron transfers in chemistry and biology
Rudolph A. Marcus,Norman Sutin +1 more
TL;DR: In this paper, the electron transfer reactions between ions and molecules in solution have been the subject of considerable experimental study during the past three decades, including charge transfer, photoelectric emission spectra, chemiluminescent electron transfer, and electron transfer through frozen media.
Journal ArticleDOI
Formation of glasses from liquids and biopolymers.
TL;DR: The onset of a sharp change in ddT( is the Debye-Waller factor and T is temperature) in proteins, which is controversially indentified with the glass transition in liquids, is shown to be general for glass formers and observable in computer simulations of strong and fragile ionic liquids, where it proves to be close to the experimental glass transition temperature.
Journal ArticleDOI
The energy landscapes and motions of proteins.
TL;DR: The concepts that emerge from studies of the conformational substates and the motions between them permit a quantitative discussion of one simple reaction, the binding of small ligands such as carbon monoxide to myoglobin.
Journal ArticleDOI
Fluorescence spectroscopy of single biomolecules.
TL;DR: The progress in applying single-molecule detection and single-Molecule spectroscopy at room temperature by laser-induced fluorescence with the use of fluorophores that are site-specifically attached to macromolecules is reviewed.