Evidence map›Paper›PMID 31316799›Full record

ArticleIUCrJ2019

Dose-resolved serial synchrotron and XFEL structures of radiation-sensitive metalloproteins.

Ali Ebrahim, Tadeo Moreno-Chicano, Martin V Appleby, Amanda K Chaplin, John H Beale, Darren A Sherrell, Helen M E Duyvesteyn, Shigeki Owada, Kensuke Tono, Hiroshi Sugimoto and 5 more

Open access · goldAbstract read
In one paragraph

Article in IUCrJ, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 66 papers.

0numbers the graph read from it
0cells of the map it votes in
66citing papers in PubMed
5.2field-weighted citation impact, top 3% 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

66 citing papers in PubMed, 90 citations in OpenAlex.

  1. Radiation damage in serial femtosecond crystallography studied in hemoglobin.Acta crystallographica. Section D, Structural biology · 2026
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  18. Identifying and avoiding radiation damage in macromolecular crystallography.Acta crystallographica. Section D, Structural biology · 2024
    Article
  19. A database overview of metal-coordination distances in metalloproteins.Acta crystallographica. Section D, Structural biology · 2024
    Article
  20. Article

6 more citing papers are in PubMed but not listed here.

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

15 authors at 5 institutions in 2 countries.

Ali EbrahimSchool of Biological Sciences, University of Essex, Wivenhoe Park, Colchester CO4 3SQ, UK.ORCID https://orcid.org/0000-0003-2661-381X
Tadeo Moreno-ChicanoSchool of Biological Sciences, University of Essex, Wivenhoe Park, Colchester CO4 3SQ, UK.
Martin V ApplebyDiamond Light Source, Harwell Science and Innovation Campus, Didcot, Oxfordshire OX11 0DE, UK.
Amanda K ChaplinSchool of Biological Sciences, University of Essex, Wivenhoe Park, Colchester CO4 3SQ, UK.
John H BealeDiamond Light Source, Harwell Science and Innovation Campus, Didcot, Oxfordshire OX11 0DE, UK.ORCID https://orcid.org/0000-0003-1171-2428
Darren A SherrellDiamond Light Source, Harwell Science and Innovation Campus, Didcot, Oxfordshire OX11 0DE, UK.ORCID https://orcid.org/0000-0002-6393-8800
Helen M E DuyvesteynDiamond Light Source, Harwell Science and Innovation Campus, Didcot, Oxfordshire OX11 0DE, UK.
Shigeki OwadaRIKEN SPring-8 Center, 1-1-1 Kouto, Sayo, Hyogo 679-5148, Japan.ORCID https://orcid.org/0000-0002-1451-7612
Kensuke TonoRIKEN SPring-8 Center, 1-1-1 Kouto, Sayo, Hyogo 679-5148, Japan.ORCID https://orcid.org/0000-0003-1218-3759
Hiroshi SugimotoJapan Synchrotron Radiation Research Institute, 1-1-1 Kouto, Sayo, Hyogo 679-5198, Japan.
Richard W StrangeSchool of Biological Sciences, University of Essex, Wivenhoe Park, Colchester CO4 3SQ, UK.ORCID https://orcid.org/0000-0001-8825-3608
Jonathan A R WorrallSchool of Biological Sciences, University of Essex, Wivenhoe Park, Colchester CO4 3SQ, UK.ORCID https://orcid.org/0000-0002-1863-834X
Danny AxfordDiamond Light Source, Harwell Science and Innovation Campus, Didcot, Oxfordshire OX11 0DE, UK.ORCID https://orcid.org/0000-0001-7694-8525
Robin L OwenDiamond Light Source, Harwell Science and Innovation Campus, Didcot, Oxfordshire OX11 0DE, UK.ORCID https://orcid.org/0000-0002-2104-7057
Michael A HoughSchool of Biological Sciences, University of Essex, Wivenhoe Park, Colchester CO4 3SQ, UK.ORCID https://orcid.org/0000-0001-7377-6713
University of Essex · GBDiamond Light Source · GBSPring-8 · JPCentre for Human Genetics · GBJapan Synchrotron Radiation Research Institute · JP

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

An approach is demonstrated to obtain, in a sample- and time-efficient manner, multiple dose-resolved crystal structures from room-temperature protein microcrystals using identical fixed-target supports at both synchrotrons and X-ray free-electron lasers (XFELs). This approach allows direct comparison of dose-resolved serial synchrotron and damage-free XFEL serial femtosecond crystallography structures of radiation-sensitive proteins. Specifically, serial synchrotron structures of a heme peroxidase enzyme reveal that X-ray induced changes occur at far lower doses than those at which diffraction quality is compromised (the Garman limit), consistent with previous studies on the reduction of heme proteins by low X-ray doses. In these structures, a functionally relevant bond length is shown to vary rapidly as a function of absorbed dose, with all room-temperature synchrotron structures exhibiting linear deformation of the active site compared with the XFEL structure. It is demonstrated that extrapolation of dose-dependent synchrotron structures to zero dose can closely approximate the damage-free XFEL structure. This approach is widely applicable to any protein where the crystal structure is altered by the synchrotron X-ray beam and provides a solution to the urgent requirement to determine intact structures of such proteins in a high-throughput and accessible manner.

Indexed as

fixed targetsheme peroxidasemetalloproteinsmicrocrystalsradiation damageserial femtosecond crystallographyserial millisecond crystallographyserial synchrotron crystallographyXFELs

Identifiers

PMID31316799
PMCPMC6608622
OpenAlexW2943259224

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.