Evidence map›Paper›PMID 39470573›Full record

ArticleIUCrJ2024

Crystal structure of a bacterial photoactivated adenylate cyclase determined by serial femtosecond and serial synchrotron crystallography.

Sofia M Kapetanaki, Nicolas Coquelle, David von Stetten, Martin Byrdin, Ronald Rios-Santacruz, Richard Bean, Johan Bielecki, Mohamed Boudjelida, Zsuzsana Fekete, Geoffrey W Grime and 28 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 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. Review
  3. A multiscaleJournal of applied crystallography · 2025
    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

38 authors.

Sofia M KapetanakiUniversité Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, 38044 Grenoble, France.ORCID 0000-0003-1286-9929
Nicolas CoquelleUniversité Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, 38044 Grenoble, France.
David von StettenEuropean Molecular Biology Laboratory (EMBL), Hamburg Unit c/o DESY, Notkestrasse 85, 22607 Hamburg, Germany.ORCID 0000-0001-7906-9788
Martin ByrdinUniversité Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, 38044 Grenoble, France.ORCID 0000-0002-6389-8714
Ronald Rios-SantacruzUniversité Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, 38044 Grenoble, France.ORCID 0000-0003-2087-4779
Richard BeanEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.ORCID 0000-0001-8151-7439
Johan BieleckiEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.ORCID 0000-0002-3012-603X
Mohamed BoudjelidaUniversité Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, 38044 Grenoble, France.
Zsuzsana FeketeDepartment of Biophysics, Medical School, University of Pecs, Szigeti Street 12, 7624 Pécs, Hungary.
Geoffrey W GrimeSurrey Ion Beam Centre, University of Surrey, Guildford GU2 7XH, United Kingdom.ORCID 0000-0002-4957-8175
Huijong HanEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.ORCID 0000-0002-1197-3014
Caitlin HattonInstitute for Nanostructure and Solid-State Physics, Universität Hamburg, HARBOR, Luruper Chaussee 149, 22761 Hamburg, Germany.ORCID 0000-0002-8446-0711
Sravya KantamneniEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.
Konstantin KharitonovEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.
Chan KimEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.ORCID 0000-0003-4559-7982
Marco KloosEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.ORCID 0000-0002-8745-9740
Faisal H M KouaEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.ORCID 0000-0001-8371-9587
Iñaki de Diego MartinezEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.ORCID 0000-0002-6156-4032
Diogo MeloEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.ORCID 0000-0002-7417-3479
Lukas RaneUniversité Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, 38044 Grenoble, France.ORCID 0000-0003-4609-2265
Adam RoundEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.
Ekaterina RoundEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.
Abhisakh SarmaEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.ORCID 0000-0002-0785-8902
Robin SchubertEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.ORCID 0000-0002-6213-2872
Joachim SchulzEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.ORCID 0000-0002-9310-8832
Marcin SikorskiEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.
Mohammad VakiliEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.ORCID 0000-0001-9776-0177
Joana ValerioEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.ORCID 0000-0001-5931-0925
Jovana VitasUniversité Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, 38044 Grenoble, France.ORCID 0009-0001-0375-5754
Raphael de WijnEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.ORCID 0000-0002-8342-1008
Agnieszka WronaEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.
Ninon ZalaUniversité Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, 38044 Grenoble, France.ORCID 0009-0003-6162-9507
Arwen PearsonInstitute for Nanostructure and Solid-State Physics, Universität Hamburg, HARBOR, Luruper Chaussee 149, 22761 Hamburg, Germany.ORCID 0000-0001-8499-7490
Katerina DörnerEuropean XFEL, Holzkoppel 4, 22869 Schenefeld, Germany.
Giorgio SchiròUniversité Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, 38044 Grenoble, France.
Elspeth F GarmanDepartment of Biochemistry, University of Oxford, Dorothy Crowfoot Hodgkin Building, South Parks Road, Oxford OX1 3QU, United Kingdom.ORCID 0000-0001-8329-5665
András LukácsDepartment of Biophysics, Medical School, University of Pecs, Szigeti Street 12, 7624 Pécs, Hungary.
Martin WeikUniversité Grenoble Alpes, CEA, CNRS, Institut de Biologie Structurale, 38044 Grenoble, France.ORCID 0000-0001-9297-642X

Funding

H2020 Marie Skłodowska-Curie Actions 893817National Research, Development and Innovation Office K-137557
6 · The paper itself

Abstract

OaPAC is a recently discovered blue-light-using flavin adenosine dinucleotide (BLUF) photoactivated adenylate cyclase from the cyanobacterium Oscillatoria acuminata that uses adenosine triphosphate and translates the light signal into the production of cyclic adenosine monophosphate. Here, we report crystal structures of the enzyme in the absence of its natural substrate determined from room-temperature serial crystallography data collected at both an X-ray free-electron laser and a synchrotron, and we compare these structures with cryo-macromolecular crystallography structures obtained at a synchrotron by us and others. These results reveal slight differences in the structure of the enzyme due to data collection at different temperatures and X-ray sources. We further investigate the effect of the Y6W mutation in the BLUF domain, a mutation which results in a rearrangement of the hydrogen-bond network around the flavin and a notable rotation of the side chain of the critical Gln48 residue. These studies pave the way for picosecond-millisecond time-resolved serial crystallography experiments at X-ray free-electron lasers and synchrotrons in order to determine the early structural intermediates and correlate them with the well studied picosecond-millisecond spectroscopic intermediates.

Indexed as

Adenylyl CyclasesSynchrotronsBacterial ProteinsCrystallography, X-RayFlavin-Adenine DinucleotideModels, MolecularOscillatoriaProtein ConformationAdenylyl CyclasesBacterial ProteinsFlavin-Adenine DinucleotideAC domainbacterial adenylate cyclaseBLUF domaincryo-macromolecular crystallographylight-activated enzymesOscillatoria acuminataprotein structureroom-temperature X-ray crystallographyserial femtosecond crystallographysynchrotronsXFELs

Identifiers

PMID39470573
PMCPMC11533990

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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.