Evidence map›Paper›PMID 38980142›Full record

ArticleIUCrJ2024

Fixed-target pump-probe SFX: eliminating the scourge of light contamination.

Guillaume Gotthard, Andrea Flores-Ibarra, Melissa Carrillo, Michal W Kepa, Thomas J Mason, Dennis P Stegmann, Bence Olasz, Magdalena Pachota, Florian Dworkowski, Dmitry Ozerov and 4 more

Abstract read
In one paragraph

Article in IUCrJ, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing 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

7 citing papers in PubMed.

  1. Article
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  4. Review
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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

14 authors.

Guillaume GotthardLaboratory of Biomolecular Research, Paul Scherrer Institut, Forschungsstrasse 111, 5232 Villigen, Switzerland.ORCID 0000-0003-2830-0286
Andrea Flores-IbarraDioscuri Center for Structural Dynamics of Receptors, Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, Gronostajowa 7, 30-380 Krakow, Poland.ORCID 0000-0003-2278-4558
Melissa CarrilloLaboratory of Nanoscale Biology, Paul Scherrer Institut, Forschungsstrasse 111, 5232 Villigen, Switzerland.ORCID 0000-0002-0744-4486
Michal W KepaLaboratory of Biomolecular Research, Paul Scherrer Institut, Forschungsstrasse 111, 5232 Villigen, Switzerland.
Thomas J MasonLaboratory of Biomolecular Research, Paul Scherrer Institut, Forschungsstrasse 111, 5232 Villigen, Switzerland.ORCID 0009-0002-7823-6497
Dennis P StegmannSwiss Light Source, Paul Scherrer Institut, Forschungsstrasse 111, 5232 Villigen, Switzerland.ORCID 0000-0003-4391-0891
Bence OlaszDioscuri Center for Structural Dynamics of Receptors, Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, Gronostajowa 7, 30-380 Krakow, Poland.
Magdalena PachotaDioscuri Center for Structural Dynamics of Receptors, Faculty of Biochemistry, Biophysics and Biotechnology, Jagiellonian University, Gronostajowa 7, 30-380 Krakow, Poland.ORCID 0000-0001-5520-6979
Florian DworkowskiLaboratory for Synchrotron Radiation and Femtochemistry, Paul Scherrer Institut, Forschungsstrasse 111, 5232 Villigen, Switzerland.ORCID 0000-0001-5004-8684
Dmitry OzerovScience IT Infrastructure and Services, Paul Scherrer Institut, Forschungsstrasse 111, 5232 Villigen, Switzerland.ORCID 0000-0002-3274-1124
Bill F PedriniLaboratory for X-ray Nanoscience and Technologies, Paul Scherrer Institut, Forschungsstrasse 111, 5232 Villigen, Switzerland.ORCID 0000-0003-4228-7874
Celestino PadesteLaboratory of Nanoscale Biology, Paul Scherrer Institut, Forschungsstrasse 111, 5232 Villigen, Switzerland.ORCID 0000-0001-7577-5781
John H BealeSwiss Light Source, Paul Scherrer Institut, Forschungsstrasse 111, 5232 Villigen, Switzerland.ORCID 0000-0003-1171-2428
Przemyslaw NoglyInstitute of Molecular Biology and Biophysics, ETH Zurich, Rämistrasse 101, 8092 Zürich, Switzerland.ORCID 0000-0002-8040-7753

Funding

Horizon 2020 Framework Programme 701647Narodowe Centrum Nauki UMO-2021/03/H/NZ1/00002Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung PZ00P3_174169
6 · The paper itself

Abstract

X-ray free-electron laser (XFEL) light sources have enabled the rapid growth of time-resolved structural experiments, which provide crucial information on the function of macromolecules and their mechanisms. Here, the aim was to commission the SwissMX fixed-target sample-delivery system at the SwissFEL Cristallina experimental station using the PSI-developed micro-structured polymer (MISP) chip for pump-probe time-resolved experiments. To characterize the system, crystals of the light-sensitive protein light-oxygen-voltage domain 1 (LOV1) from Chlamydomonas reinhardtii were used. Using different experimental settings, the accidental illumination, referred to as light contamination, of crystals mounted in wells adjacent to those illuminated by the pump laser was examined. It was crucial to control the light scattering from and through the solid supports otherwise significant contamination occurred. However, the results here show that the opaque MISP chips are suitable for defined pump-probe studies of a light-sensitive protein. The experiment also probed the sub-millisecond structural dynamics of LOV1 and indicated that at Δt = 10 µs a covalent thioether bond is established between reactive Cys57 and its flavin mononucleotide cofactor. This experiment validates the crystals to be suitable for in-depth follow-up studies of this still poorly understood signal-transduction mechanism. Importantly, the fixed-target delivery system also permitted a tenfold reduction in protein sample consumption compared with the more common high-viscosity extrusion-based delivery system. This development creates the prospect of an increase in XFEL project throughput for the field.

Indexed as

Chlamydomonas reinhardtiiCrystallography, X-RayLasersLightfixed targetslight contaminationphotoreceptor light–oxygen–voltage domainspump–proberoom-temperature crystallographysample consumptionserial femtosecond crystallographytime-resolved crystallographyX-ray free-electron lasers

Identifiers

PMID38980142
PMCPMC11364036

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.