Evidence map›Paper›PMID 37797025›Full record

ArticleScience (New York, N.Y.)2023

Structure of a ribonucleotide reductase R2 protein radical.

Hugo Lebrette, Vivek Srinivas, Juliane John, Oskar Aurelius, Rohit Kumar, Daniel Lundin, Aaron S Brewster, Asmit Bhowmick, Abhishek Sirohiwal, In-Sik Kim and 18 more

Open access · hybridAbstract read
In one paragraph

Article in Science (New York, N.Y.), 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed
2.1field-weighted citation impact, top 13% of its field
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

11 citing papers in PubMed, 21 citations in OpenAlex.

  1. Article
  2. Article
  3. Low-barrier hydrogen bond powers long-range radical transfer in the metal-free ribonucleotide reductase.Proceedings of the National Academy of Sciences of the United States of America · 2026
    Article
  4. Review
  5. Article
  6. Review
  7. XFEL Beamline Optical Instrumentation for Ultrafast Science.The journal of physical chemistry. B · 2024
    Review
  8. Review
  9. Hydration ofMolecules (Basel, Switzerland) · 2024
    Article
  10. Article
  11. A missense mutation in themicroPublication biology · 2023
    Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

28 authors at 6 institutions in 4 countries.

Hugo Lebrette *Department of Biochemistry and Biophysics, Stockholm University, Arrhenius Laboratories for Natural Sciences, Stockholm, Sweden.ORCID 0000-0002-8081-181X
Vivek Srinivas *Department of Biochemistry and Biophysics, Stockholm University, Arrhenius Laboratories for Natural Sciences, Stockholm, Sweden.ORCID 0000-0002-0265-1873
Juliane JohnDepartment of Biochemistry and Biophysics, Stockholm University, Arrhenius Laboratories for Natural Sciences, Stockholm, Sweden.ORCID 0000-0001-9626-3670
Oskar AureliusDepartment of Biochemistry and Biophysics, Stockholm University, Arrhenius Laboratories for Natural Sciences, Stockholm, Sweden.
Rohit KumarDepartment of Biochemistry and Biophysics, Stockholm University, Arrhenius Laboratories for Natural Sciences, Stockholm, Sweden.ORCID 0000-0001-5033-2810
Daniel LundinDepartment of Biochemistry and Biophysics, Stockholm University, Arrhenius Laboratories for Natural Sciences, Stockholm, Sweden.ORCID 0000-0002-8779-6464
Aaron S BrewsterMolecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0002-0908-7822
Asmit BhowmickMolecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0002-6154-6635
Abhishek SirohiwalDepartment of Biochemistry and Biophysics, Stockholm University, Arrhenius Laboratories for Natural Sciences, Stockholm, Sweden.ORCID 0000-0002-4073-7627
In-Sik KimMolecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0002-0258-6012
Sheraz GulMolecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0001-8920-8737
Cindy PhamMolecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
Kyle D SutherlinMolecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0001-6958-4671
Philipp SimonMolecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0002-2859-4475
Agata ButrynDiamond Light Source Ltd, Harwell Science and Innovation Campus, Didcot, UK.ORCID 0000-0002-5227-4770
Pierre AllerDiamond Light Source Ltd, Harwell Science and Innovation Campus, Didcot, UK.
Allen M OrvilleDiamond Light Source Ltd, Harwell Science and Innovation Campus, Didcot, UK.ORCID 0000-0002-7803-1777
Franklin D FullerLCLS, SLAC National Accelerator Laboratory, Menlo Park, CA, USA.
Roberto Alonso-MoriLCLS, SLAC National Accelerator Laboratory, Menlo Park, CA, USA.ORCID 0000-0002-5357-0934
Alexander BatyukLCLS, SLAC National Accelerator Laboratory, Menlo Park, CA, USA.ORCID 0000-0002-9393-2880
Nicholas K SauterMolecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0003-2786-6552
Vittal K YachandraMolecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0002-3983-7858
Junko YanoMolecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0001-6308-9071
Ville R I KailaDepartment of Biochemistry and Biophysics, Stockholm University, Arrhenius Laboratories for Natural Sciences, Stockholm, Sweden.ORCID 0000-0003-4464-6324
Britt-Marie SjöbergDepartment of Biochemistry and Biophysics, Stockholm University, Arrhenius Laboratories for Natural Sciences, Stockholm, Sweden.ORCID 0000-0001-5953-3360
Jan KernMolecular Biophysics and Integrated Bioimaging Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.ORCID 0000-0002-7272-1603
Katarina RoosDepartment of Cell and Molecular Biology, Uppsala University, Uppsala, Sweden.ORCID 0000-0002-4492-0832
Martin HögbomDepartment of Biochemistry and Biophysics, Stockholm University, Arrhenius Laboratories for Natural Sciences, Stockholm, Sweden.ORCID 0000-0001-5574-9383
Lawrence Berkeley National Laboratory · USStockholm University · SEDiamond Light Source · GBSLAC National Accelerator Laboratory · USCentre National de la Recherche Scientifique · FRUppsala University · SE

Funding

Taking Snapshots of the Water-Oxidation Reaction by the Mn4Ca Oxygen-Evolving Complex Using X-ray Crystallography and SpectroscopyR01GM055302 · NIGMS · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI YACHANDRA, VITTAL · 1997 to 2022
$9.1M
Structural Dynamics at LCLSP41GM139687 · NIGMS · STANFORD UNIVERSITY · PI HUNTER, MARK · 2021 to 2025
$7.5M
DIALS: New Computational Methods to Enable Challenging Crystallographic ExperimentsR01GM117126 · NIGMS · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI SAUTER, NICHOLAS K · 2016 to 2023
$6.1M
Biological Spectroscopy and Crystallography Using an X-ray Free Electron Laser - Supplemental EquipmentR01GM110501 · NIGMS · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI Junko Yano · 2014 to 2026
$4.8M
High throughput sample delivery method for time resolved studies of enzyme reactions with X-ray and complementary techniquesR01GM126289 · NIGMS · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI KERN, JAN F · 2017 to 2025
$4.6M
Taking Snapshots of Enzymatic Reactions Using X-ray Crystallography and SpectroscopyR35GM149528 · NIGMS · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI VITTAL YACHANDRA · 2023 to 2026
$2.7M
High-end X-ray Detector System for Femtosecond CrystallographyS10OD023453 · OD · STANFORD UNIVERSITY · PI BOUTET, SEBASTIEN · 2017 to 2017
$1.7M
Structure and Function of the Mn Oxygen-Evolving ComplexR56GM055302 · NIGMS · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI YACHANDRA, VITTAL · 2009 to 2009
$530k
Quantum refinement for improvement of metalloenzyme crystal structuresF32GM133081 · NIGMS · UNIVERSITY OF CALIF-LAWRENC BERKELEY LAB · PI SUTHERLIN, KYLE D. · 2019 to 2019
$48k
European Research Council 724394NIGMS NIH HHS F32 GM133081NIGMS NIH HHS P41 GM139687NIGMS NIH HHS R01 GM055302NIGMS NIH HHS R01 GM110501NIGMS NIH HHS R01 GM117126NIGMS NIH HHS R01 GM126289NIGMS NIH HHS R35 GM149528NIGMS NIH HHS R56 GM055302NIH HHS S10 OD023453Wellcome Trust 210734Wellcome Trust 210734/Z/18/Z
6 · The paper itself

Abstract

Aerobic ribonucleotide reductases (RNRs) initiate synthesis of DNA building blocks by generating a free radical within the R2 subunit; the radical is subsequently shuttled to the catalytic R1 subunit through proton-coupled electron transfer (PCET). We present a high-resolution room temperature structure of the class Ie R2 protein radical captured by x-ray free electron laser serial femtosecond crystallography. The structure reveals conformational reorganization to shield the radical and connect it to the translocation path, with structural changes propagating to the surface where the protein interacts with the catalytic R1 subunit. Restructuring of the hydrogen bond network, including a notably short O-O interaction of 2.41 angstroms, likely tunes and gates the radical during PCET. These structural results help explain radical handling and mobilization in RNR and have general implications for radical transfer in proteins.

Indexed as

Bacterial ProteinsEntomoplasmataceaeRibonucleotide ReductasesCatalytic DomainCrystallography, X-RayElectron TransportProtonsanaerobic ribonucleotide reductaseBacterial ProteinsProtonsRibonucleotide Reductases

Identifiers

PMID37797025
PMCPMC7615503
OpenAlexW4387392906

What OpenQuestion holds

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Read underepoch 390

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.