Evidence map›Paper›PMID 40229244›Full record

ArticleNature communications2025

Preparation of oxygen-sensitive proteins for high-resolution cryoEM structure determination using blot-free vitrification.

Brian D Cook, Sarah M Narehood, Kelly L McGuire, Yizhou Li, F Akif Tezcan, Mark A Herzik

Abstract read
In one paragraph

Article in Nature communications, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

5 citing papers in PubMed.

  1. Article
  2. Article
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4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

6 authors.

Brian D Cook *Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, USA.ORCID http://orcid.org/0000-0002-5777-3464
Sarah M Narehood *Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, USA.ORCID http://orcid.org/0000-0001-6822-8608
Kelly L McGuire *Department of Chemistry and Biochemistry, University of California San Diego, La Jolla, USA.ORCID http://orcid.org/0009-0005-7520-3675
Yizhou LiDepartment of Chemistry and Biochemistry, University of California San Diego, La Jolla, USA.ORCID http://orcid.org/0009-0000-5502-4243
F Akif TezcanDepartment of Chemistry and Biochemistry, University of California San Diego, La Jolla, USA.ORCID http://orcid.org/0000-0002-4733-6500
Mark A HerzikDepartment of Chemistry and Biochemistry, University of California San Diego, La Jolla, USA. mherzik@ucsd.edu.ORCID http://orcid.org/0000-0001-6653-6682

Funding

ChimeraX -- Next Generation Visualization and Analysis Software for Multiscale ModelingR01GM129325 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI FERRIN, THOMAS E · 2018 to 2025
$5.2M
Training in Multi-Scale Analysis of Biological Structure and FunctionT32EB009380 · NIBIB · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI Andrew D. McCulloch, Padmini Rangamani · 2009 to 2026
$4.8M
Towards an Atomistic Understanding of Mitochondrial Protein Biogenesis (Equipment Supplement)R35GM138206 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI HERZIK, MARK ANTHONY · 2020 to 2024
$2.1M
Mechanism of Energy Transduction and Substrate Activation in Biological Nitrogen FixationR01GM148607 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI F. Akif Tezcan · 2023 to 2026
$1.3M
Chameleon Sample Preparation Device for Cryo-EMS10OD032471 · OD · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI LESCHZINER, ANDRES · 2022 to 2022
$420k
NIBIB NIH HHS T32 EB009380NIGMS NIH HHS R01 GM129325NIGMS NIH HHS R01 GM148607NIGMS NIH HHS R35 GM138206NIH HHS S10 OD032471U.S. Department of Health & Human Services | NIH | National Institute of General Medical Sciences (NIGMS) R01-GM148607U.S. Department of Health & Human Services | NIH | National Institute of General Medical Sciences (NIGMS) R01GM148607
6 · The paper itself

Abstract

High-quality grid preparation for single-particle cryogenic electron microscopy (cryoEM) remains a bottleneck for routinely obtaining high-resolution structures. The issues that arise from traditional grid preparation workflows are particularly exacerbated for oxygen-sensitive proteins, including metalloproteins, whereby oxygen-induced damage and alteration of oxidation states can result in protein inactivation, denaturation, and/or aggregation. Indeed, 99% of the current structures in the EMBD were prepared aerobically and limited successes for anaerobic cryoEM grid preparation exist. Current practices for anaerobic grid preparation involve a vitrification device located in an anoxic chamber, which presents significant challenges including temperature and humidity control, optimization of freezing conditions, costs for purchase and operation, as well as accessibility. Here, we present a streamlined approach that allows for the vitrification of oxygen-sensitive proteins in reduced states using an automated blot-free grid vitrification device - the SPT Labtech chameleon. This robust workflow allows for high-resolution structure determination of dynamic, oxygen-sensitive proteins, of varying complexity and molecular weight.

Indexed as

Cryoelectron MicroscopyOxygenProteinsVitrificationOxygenProteins

Identifiers

PMID40229244
PMCPMC11997128

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.