Single-molecule FRET methods to study the dynamics of proteins at work

H Mazal, G Haran - Current opinion in biomedical engineering, 2019 - Elsevier
Feynman commented that “Everything that living things do can be understood in terms of the
jiggling and wiggling of atoms”. Proteins can jiggle and wiggle large structural elements …

FRET-based dynamic structural biology: Challenges, perspectives and an appeal for open-science practices

E Lerner, A Barth, J Hendrix, B Ambrose, V Birkedal… - Elife, 2021 - elifesciences.org
Single-molecule FRET (smFRET) has become a mainstream technique for studying
biomolecular structural dynamics. The rapid and wide adoption of smFRET experiments by …

[HTML][HTML] Intrinsic dynamics is evolutionarily optimized to enable allosteric behavior

Y Zhang, P Doruker, B Kaynak, S Zhang… - Current opinion in …, 2020 - Elsevier
Highlights•The intrinsic dynamics, encoded in proteins' sequences and structures, are
utilized by stimuli to trigger allosteric and functional actions.•The modes of allosteric actions …

Imaging plant cells and organs with light-sheet and super-resolution microscopy

M Ovečka, J Sojka, M Tichá, G Komis… - Plant …, 2022 - academic.oup.com
The documentation of plant growth and development requires integrative and scalable
approaches to investigate and spatiotemporally resolve various dynamic processes at …

Challenges in inferring the directionality of active molecular processes from single-molecule fluorescence resonance energy transfer trajectories

A Godec, DE Makarov - The journal of physical chemistry letters, 2022 - ACS Publications
We discuss some of the practical challenges that one faces in using stochastic
thermodynamics to infer directionality of molecular machines from experimental single …

Unmasking AlphaFold to integrate experiments and predictions in multimeric complexes

C Mirabello, B Wallner, B Nystedt, S Azinas… - Nature …, 2024 - nature.com
Since the release of AlphaFold, researchers have actively refined its predictions and
attempted to integrate it into existing pipelines for determining protein structures. These …

NMR and Single-Molecule FRET Insights into Fast Protein Motions and Their Relation to Function

P Schanda, G Haran - Annual Review of Biophysics, 2024 - annualreviews.org
Proteins often undergo large-scale conformational transitions, in which secondary and
tertiary structure elements (loops, helices, and domains) change their structures or their …

[HTML][HTML] All over or overall–Do we understand allostery?

H Hofmann - Current Opinion in Structural Biology, 2023 - Elsevier
Allostery is probably the most important concept in the regulation of cellular processes.
Models to explain allostery are plenty. Each sheds light on different aspects but their entirety …

Allosteric communication between ligand binding domains modulates substrate inhibition in adenylate kinase

D Scheerer, BV Adkar… - Proceedings of the …, 2023 - National Acad Sciences
Enzymes play a vital role in life processes; they control chemical reactions and allow
functional cycles to be synchronized. Many enzymes harness large-scale motions of their …

Multi-parameter photon-by-photon hidden Markov modeling

PD Harris, A Narducci, C Gebhardt, T Cordes… - Nature …, 2022 - nature.com
Single molecule Förster resonance energy transfer (smFRET) is a unique biophysical
approach for studying conformational dynamics in biomacromolecules. Photon-by-photon …