DOI: 10.7554/elife.42166. New tools for automated high-resolution cryo-EM structure determination in RELION-3

New tools for automated high-resolution cryo-EM structure determination in RELION-3

10.7554/elife.42166

Crossref journal-article

eLife Sciences Publications, Ltd

eLife (4374)

Abstract

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.

Bibliography

Zivanov, J., Nakane, T., Forsberg, B. O., Kimanius, D., Hagen, W. J., Lindahl, E., & Scheres, S. H. (2018). New tools for automated high-resolution cryo-EM structure determination in RELION-3. ELife, 7. CLOCKSS.

Authors 7

Jasenko Zivanov (first)
Takanori Nakane (additional)
Björn O Forsberg (additional)
Dari Kimanius (additional)
Wim JH Hagen (additional)
Erik Lindahl (additional)
Sjors HW Scheres (additional)

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Dates

Type	When
Created	6 years, 9 months ago (Nov. 9, 2018, 8 a.m.)
Deposited	1 year, 10 months ago (Oct. 11, 2023, 9:02 p.m.)
Indexed	44 minutes ago (Aug. 21, 2025, 1:03 a.m.)
Issued	6 years, 9 months ago (Nov. 9, 2018)
Published	6 years, 9 months ago (Nov. 9, 2018)
Published Online	6 years, 9 months ago (Nov. 9, 2018)

Funders 6

Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung 10.13039/501100001711
Region: Europe
pri (Trusts, charities, foundations (both public and private))
Labels10
1. Schweizerischer Nationalfonds
2. Swiss National Science Foundation
3. Fonds National Suisse de la Recherche Scientifique
4. Fondo Nazionale Svizzero per la Ricerca Scientifica
5. Fonds National Suisse
6. Fondo Nazionale Svizzero
7. Schweizerische Nationalfonds
8. SNF
9. SNSF
10. FNS
Awards1
1. SNF: P2BSP2 168735
Japan Society for the Promotion of Science 10.13039/501100001691
Region: Asia
gov (National government)
Labels6
1. KAKENHI
2. 日本学術振興会
3. Gakushin
4. JSPS KAKEN
5. JSPS Grants-in-Aid for Scientific Research
6. JSPS
Awards1
1. Overseas Research Fellowship
Swedish National Infrastructure for Computing
Awards1
1. 2017/12-54
Vetenskapsrådet 10.13039/501100004359
Region: Europe
gov (National government)
Labels2
1. Swedish Research Council
2. VR
Awards1
1. 2017-04641
Knut och Alice Wallenbergs Stiftelse 10.13039/501100004063
Region: Europe
pri (Trusts, charities, foundations (both public and private))
Labels1
1. Knut and Alice Wallenberg Foundation
Medical Research Council 10.13039/501100000265
Region: Europe
gov (National government)
Labels3
1. Medical Research Council (United Kingdom)
2. UK Medical Research Council
3. MRC
Awards1
1. MC_UP_A025_1013

BibTeX

@article{Zivanov_2018, title={New tools for automated high-resolution cryo-EM structure determination in RELION-3}, volume={7}, ISSN={2050-084X}, url={http://dx.doi.org/10.7554/elife.42166}, DOI={10.7554/elife.42166}, journal={eLife}, publisher={eLife Sciences Publications, Ltd}, author={Zivanov, Jasenko and Nakane, Takanori and Forsberg, Björn O and Kimanius, Dari and Hagen, Wim JH and Lindahl, Erik and Scheres, Sjors HW}, year={2018}, month=nov }

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