New tools for automated high-resolution cryo-EM structure determination in RELION-3
By Jasenko Zivanov, Takanori Nakane, Björn Forsberg, Dari Kimanius, W. Hagen, Erik Lindahl, Sjors H. W. Scheres. 2018
4,245 citations recorded by the source corpus.
Here, we describe the third major release of RELION. CPU-based vector acceleration has been added in addition to GPU support, which provides flexibility in use of resources and avoids memory limitations. Reference-free autopicking with Laplacian-of-Gaussian filtering and execution of jobs from python allows non-interactive processing during acquisition, including 2D-classification, de novo model generation and 3D-classification. Per-particle refinement of CTF parameters and correction of estimated beam tilt provides higher resolution reconstructions when particles are at different heights in the ice, and/or coma-free alignment has not been optimal. Ewald sphere curvature correction improves resolution for large particles. We illustrate these developments with publicly available data sets: together with a Bayesian approach to beam-induced motion correction it leads to resolution improvements of 0.2–0.7 Å compared to previous RELION versions.
Subfields: Electrical and Electronic Engineering, Computational Biology & Bioinformatics
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Citations in the corpus
- The RIG-I receptor adopts two different conformations for distinguishing host from viral RNA ligands (2022, positive): “The best 3D class contained 692,833 particles, which were rescaled to 1.068 Å/pix and subjected to 3D refinement, Ctfrefine and Byaesian polishing, following a final 3D refinement (Zivanov et al., 2018; Zivanov et al., 2019).”
- A structural inventory of native ribosomal ABCE1‐43S pre‐initiation complexes (2020, positive): “Particle images were extracted in RELION 3.0 (Zivanov et al , 2018) and subjected to reference-free 2D classification.”
- Symmetry disruption commits vault particles to disassembly (2022, neutral): “Maximum likelihood classification methods implemented in RELION ( 21 ) allowed the identification of a group of particles deviating from the symmetrical arrangement of the “closed” whole vault state.”