Conformational heterogeneity and probability distributions from single-particle cryo-electron microscopy

WS Tang, ED Zhong, SM Hanson, EH Thiede… - Current Opinion in …, 2023 - Elsevier
Single-particle cryo-electron microscopy (cryo-EM) is a technique that takes projection
images of biomolecules frozen at cryogenic temperatures. A major advantage of this …

Methods for cryo-EM single particle reconstruction of macromolecules having continuous heterogeneity

B Toader, FJ Sigworth, RR Lederman - Journal of molecular biology, 2023 - Elsevier
Macromolecules change their shape (conformation) in the process of carrying out their
functions. The imaging by cryo-electron microscopy of rapidly-frozen, individual copies of …

[HTML][HTML] ScipionTomo: Towards cryo-electron tomography software integration, reproducibility, and validation

JJ de la Morena, P Conesa, YC Fonseca… - Journal of structural …, 2022 - Elsevier
Image processing in cryogenic electron tomography (cryoET) is currently at a similar state as
Single Particle Analysis (SPA) in cryogenic electron microscopy (cryoEM) was a few years …

MDSPACE: Extracting continuous conformational landscapes from Cryo-EM single particle datasets using 3D-to-2D flexible fitting based on molecular dynamics …

R Vuillemot, A Mirzaei, M Harastani… - Journal of Molecular …, 2023 - Elsevier
This article presents an original approach for extracting atomic-resolution landscapes of
continuous conformational variability of biomolecular complexes from cryo electron …

MDTOMO method for continuous conformational variability analysis in cryo electron subtomograms based on molecular dynamics simulations

R Vuillemot, I Rouiller, S Jonić - Scientific Reports, 2023 - nature.com
Cryo electron tomography (cryo-ET) allows observing macromolecular complexes in their
native environment. The common routine of subtomogram averaging (STA) allows obtaining …

Ensemble reweighting using cryo-EM particle images

WS Tang, D Silva-Sánchez… - The Journal of …, 2023 - ACS Publications
Cryo-electron microscopy (cryo-EM) has recently become a leading method for obtaining
high-resolution structures of biological macromolecules. However, cryo-EM is limited to …

ContinuousFlex: Software package for analyzing continuous conformational variability of macromolecules in cryo electron microscopy and tomography data

M Harastani, R Vuillemot, I Hamitouche… - Journal of Structural …, 2022 - Elsevier
ContinuousFlex is a user-friendly open-source software package for analyzing continuous
conformational variability of macromolecules in cryo electron microscopy (cryo-EM) and cryo …

Integrating model simulation tools and cryo‐electron microscopy

JG Beton, T Cragnolini, M Kaleel… - Wiley …, 2023 - Wiley Online Library
The power of computer simulations, including machine‐learning, has become an
inseparable part of scientific analysis of biological data. This has significantly impacted the …

Integrating molecular models into CryoEM heterogeneity analysis using scalable high-resolution deep Gaussian mixture models

M Chen, B Toader, R Lederman - Journal of molecular biology, 2023 - Elsevier
Resolving the structural variability of proteins is often key to understanding the structure–
function relationship of those macromolecular machines. Single particle analysis using …

Overview of membrane protein sample preparation for single-particle cryo-electron microscopy analysis

C Vénien-Bryan, CAH Fernandes - International Journal of Molecular …, 2023 - mdpi.com
Single-particle cryo-electron microscopy (cryo-EM SPA) has recently emerged as an
exceptionally well-suited technique for determining the structure of membrane proteins …