Results 31 to 40 of about 4,596 (191)

Single Molecule FRET: A Powerful Tool to Study Intrinsically Disordered Proteins

Biomolecules, 2018
Intrinsically disordered proteins (IDPs) are often modeled using ideas from polymer physics that suggest they smoothly explore all corners of configuration space.
Sharonda J. LeBlanc, Prakash Kulkarni, Keith R. Weninger   +2 more
doaj   +1 more source

Cooperative Analysis of Structural Dynamics in RNA-Protein Complexes by Single-Molecule Förster Resonance Energy Transfer Spectroscopy

Molecules, 2020
RNA-protein complexes (RNPs) are essential components in a variety of cellular processes, and oftentimes exhibit complex structures and show mechanisms that are highly dynamic in conformation and structure.
Nathalie Meiser, Christin Fuks, Martin Hengesbach   +2 more
doaj   +1 more source

BOBA FRET: bootstrap-based analysis of single-molecule FRET data. [PDF]

PLoS ONE, 2013
Time-binned single-molecule Förster resonance energy transfer (smFRET) experiments with surface-tethered nucleic acids or proteins permit to follow folding and catalysis of single molecules in real-time. Due to the intrinsically low signal-to-noise ratio
Sebastian L B König, Mélodie Hadzic, Erica Fiorini, Richard Börner, Danny Kowerko, Wolf U Blanckenhorn, Roland K O Sigel   +6 more
doaj   +1 more source

DeepFRET, a software for rapid and automated single-molecule FRET data classification using deep learning

eLife, 2020
Single-molecule Förster Resonance energy transfer (smFRET) is an adaptable method for studying the structure and dynamics of biomolecules. The development of high throughput methodologies and the growth of commercial instrumentation have outpaced the ...
Johannes Thomsen, Magnus Berg Sletfjerding, Simon Bo Jensen, Stefano Stella, Bijoya Paul, Mette Galsgaard Malle, Guillermo Montoya, Troels Christian Petersen, Nikos S Hatzakis   +8 more
doaj   +1 more source

Methods for automating the analysis of live-cell single-molecule FRET data

Frontiers in Cell and Developmental Biology, 2023
Single-molecule FRET (smFRET) is a powerful imaging platform capable of revealing dynamic changes in the conformation and proximity of biological molecules.
Jozsef Meszaros, Jozsef Meszaros, Peter Geggier, Peter Geggier, Jamie J. Manning, Jamie J. Manning, Wesley B. Asher, Wesley B. Asher, Jonathan A. Javitch, Jonathan A. Javitch, Jonathan A. Javitch, Jonathan A. Javitch   +11 more
doaj   +1 more source

Conformational Selection and Induced Fit: The Behavior of Two Homologous Proteases

ChemistryEurope, 2023
Protein‐ligand interactions are crucial for many cellular processes, with details of the binding mechanism being discussed as essential for biological functions.
Hannah Maus, Gerald Hinze, Stefan J. Hammerschmidt, Prof. Dr. Tanja Schirmeister, Prof. Dr. Thomas Basché   +4 more
doaj   +1 more source

Quantitative comparison between sub-millisecond time resolution single-molecule FRET measurements and 10-second molecular simulations of a biosensor protein.

PLoS Computational Biology, 2020
Molecular Dynamics (MD) simulations seek to provide atomic-level insights into conformationally dynamic biological systems at experimentally relevant time resolutions, such as those afforded by single-molecule fluorescence measurements.
Dylan Girodat, Avik K Pati, Daniel S Terry, Scott C Blanchard, Karissa Y Sanbonmatsu   +4 more
doaj   +1 more source

A Continuous Time Representation of smFRET for the Extraction of Rapid Kinetics [PDF]

Biophysical Journal, 2020
Abstract Our goal is to learn kinetic rates from single molecule FRET (smFRET) data even if these exceed the data acquisition rate. To achieve this, we develop a variant of our recently proposed hidden Markov jump process (HMJP) with which we learn transition kinetics from parallel ...
Zeliha Kilic, Ioannis Sgouralis, Wooseok Heo, Kunihiko Ishii, Tahei Tahara, Steve Pressé   +5 more
openaire   +2 more sources

FRETBursts: An Open Source Toolkit for Analysis of Freely-Diffusing Single-Molecule FRET.

PLoS ONE, 2016
Single-molecule Förster Resonance Energy Transfer (smFRET) allows probing intermolecular interactions and conformational changes in biomacromolecules, and represents an invaluable tool for studying cellular processes at the molecular scale.
Antonino Ingargiola, Eitan Lerner, SangYoon Chung, Shimon Weiss, Xavier Michalet   +4 more
doaj   +1 more source

Altered tRNA dynamics during translocation on slippery mRNA as determinant of spontaneous ribosome frameshifting

Nature Communications, 2022
Slippery sequences in mRNA can cause the ribosome to change its reading frame. Using smFRET, Poulis et al. show how reversible fluctuations of peptidyl-tRNA slow down translocation, alter ribosome dynamics, and favor spontaneous ribosome frameshifting.
Panagiotis Poulis, Anoshi Patel, Marina V. Rodnina, Sarah Adio   +3 more
doaj   +1 more source