Challenges and opportunities in cryo-EM single-particle analysis

D Lyumkis - Journal of Biological Chemistry, 2019 - ASBMB
Cryogenic electron microscopy (cryo-EM) enables structure determination of
macromolecular objects and their assemblies. Although the techniques have been …

[HTML][HTML] Cryo-electron microscopy for structural analysis of dynamic biological macromolecules

K Murata, M Wolf - Biochimica et Biophysica Acta (BBA)-General Subjects, 2018 - Elsevier
Background Since the introduction of what became today's standard for cryo-embedding of
biological macromolecules at native conditions more than 30 years ago, techniques and …

Characterisation of molecular motions in cryo-EM single-particle data by multi-body refinement in RELION

T Nakane, D Kimanius, E Lindahl, SHW Scheres - elife, 2018 - elifesciences.org
Macromolecular complexes that exhibit continuous forms of structural flexibility pose a
challenge for many existing tools in cryo-EM single-particle analysis. We describe a new …

Estimating conformational landscapes from Cryo-EM particles by 3D Zernike polynomials

D Herreros, RR Lederman, JM Krieger… - Nature …, 2023 - nature.com
The new developments in Cryo-EM Single Particle Analysis are helping us to understand
how the macromolecular structure and function meet to drive biological processes. By …

Amortized inference for heterogeneous reconstruction in cryo-em

A Levy, G Wetzstein, JNP Martel… - Advances in neural …, 2022 - proceedings.neurips.cc
Cryo-electron microscopy (cryo-EM) is an imaging modality that provides unique insights
into the dynamics of proteins and other building blocks of life. The algorithmic challenge of …

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 …