Automated harvesting and processing of protein crystals through laser photoablation

Zander, U.; Hoffmann, Guillaume; Cornaciu, Irina; Marquette, Jean‐Pierre; Papp, Gergely; Landret, C.; Seroul, Gaël; Sinoir, Jérémy; Röwer, Martin; Felisaz, Frank; Rodríguez-Puente, Sonia; Mariaule, Vincent; Murphy, Peter; Mathieu, Magali; Cipriani, F.; Márquez, José Antonio

doi:10.1107/s2059798316000954

Cited by 81 publications

(89 citation statements)

References 47 publications

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“…2). Pellegrini and coworkers showed that several crystals (solvent content 44-47%) could be successfully flash-cooled simply by wicking away all external solution (Pellegrini et al, 2011), an approach that has been adopted for automounting of crystals (Zander et al, 2016). Our results suggest that some of these crystals may still benefit from solvent-contraction optimization.…”

Section: Thermal-contraction-guided Cryo-optimizationmentioning

confidence: 70%

“…For example, Warkentin and Thorne showed that thaumatin crystals grown from 1.5 M sodium potassium tartrate could be both flash-cooled and slow-cooled simply by using NVH oil and carefully removing all aqueous external solvent (Warkentin & Thorne, 2009). Pellegrini and coworkers showed that several crystals (solvent content 44-47%) could be successfully flash-cooled simply by wicking away all external solution (Pellegrini et al, 2011), an approach that has been adopted for automounting of crystals (Zander et al, 2016). The cell contraction in this case was about 4%, corresponding to a solvent contraction of about 7% (Fig.…”

Section: Thermal-contraction-guided Cryo-optimizationmentioning

confidence: 99%

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The impact of cryosolution thermal contraction on proteins and protein crystals: volumes, conformation and order

Juers

Farley

Saxby

et al. 2018

Acta Crystallogr D Struct Biol

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Section: Thermal-contraction-guided Cryo-optimizationmentioning

confidence: 70%

Section: Thermal-contraction-guided Cryo-optimizationmentioning

confidence: 99%

The impact of cryosolution thermal contraction on proteins and protein crystals: volumes, conformation and order

Juers

Farley

Saxby

et al. 2018

Acta Crystallogr D Struct Biol

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“…It is made available under a The copyright holder for this preprint (which was not . http://dx.doi.org/10.1101/236596 doi: bioRxiv preprint first posted online developments in the robotic mounting and soaking of crystals (Zander, Hoffmann, et al, 2016) we envision that the future of macromolecular crystallography is the provision of a fully automated high throughput service able to rapidly produce high quality structural models and screen for potential therapeutic and probe molecules.…”

Section: Discussionmentioning

confidence: 99%

“…We thank Tony Warne (MRC-LMB, Cambridge, UK) for the gift of (Zander, Hoffmann, et al, 2016) support that has 3 crystals mounted. The widest orientation of the mount was selected.…”

Section: Acknowledgmentsmentioning

confidence: 99%

Recent improvements to the automatic characterization and data collection algorithms on MASSIF-1

Svensson

Gilski

Nurizzo

et al. 2017

Preprint

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SynopsisSignificant improvements in the sample location, characterisation and data collection algorithms on the autonomous ESRF beamline MASSIF-1 are described. The workflows now include dynamic beam diameter adjustment and multi-position and multi-crystal data collections.. CC-BY-ND 4.0 International license peer-reviewed) is the author/funder. It is made available under a The copyright holder for this preprint (which was not . http://dx.doi.org/10.1101/236596 doi: bioRxiv preprint first posted online 2 Abstract Macromolecular crystallography (MX) is now a mature and widely used technique essential in the understanding of biology and medicine. Increases in computing power combined with robotics have enabled not only large numbers of samples to be screened and characterised but also for better decisions to be taken on data collection itself. This led to the development of MASSIF-1 at the ESRF, the world's first beamline to run fully automatically while making intelligent decisions taking user requirements into account. Since opening in late 2014 the beamline has now processed over 39,000 samples. Improvements have been made to the speed of the sample handling robotics and error management within the software routines.The workflows initially put in place, while highly innovative at the time, have been expanded to include increased complexity and additional intelligence using the information gathered during characterisation, this includes adapting the beam diameter dynamically to match the diffraction volume within the crystal. Complex multi-position and multi-crystal data collections are now also integrated into the selection of experiments available. This has led to increased data quality and throughput allowing even the most challenging samples to be treated automatically.Key words: X-ray centring; synchrotron instrumentation; macromolecular crystallography; automation; helical data collection; multiple crystal data collection . CC-BY-ND 4.0 International license peer-reviewed) is the author/funder. It is made available under a The copyright holder for this preprint (which was not . http://dx.doi.org/10.1101/236596 doi: bioRxiv preprint first posted online 3 IntroductionAutomation is transforming the way scientific data are collected, allowing large amounts of high quality data to be gathered in a consistent manner (Quintana & Plätzer, 2015;Foster, 2005). Advances in robotics and software have been key in these developments and have had a particular impact on structural biology, allowing multiple constructs to be screened and purified (Camper & Viola, 2009;Hart & Waldo, 2013;Vijayachandran et al., 2011); huge numbers of crystallisation experiments to be performed (Elsliger et al., 2010;Ferrer et al., 2013;Heinemann et al., 2003;Joachimiak, 2009;Calero et al., 2014), samples to be mounted at synchrotrons (Cipriani et al., 2006; Cohen et al., 2002;Jacquamet et al., 2009;Papp et al., 2017;Snell et al., 2004), data to be analysed and processed (Bourenkov & Popov, 2010;Holton & Alber, 2004;Incardona et al., ...

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“…While no crystals could be obtained for the wildtype and most of the mutants, one of these variants produced crystals very efficiently in the absence of myricetin. 30 In this variant, Ala141 was substituted by Phe (A141F, PDB code: 5AMW). Ala 141 is located in the predicted α-helix 3 (Supprting Information Figure 1A) which, based on the structure of Fra a 1.01E and Fra a 1.03, faces the cavity.…”

Section: Journal Of Agricultural and Food Chemistrymentioning

confidence: 99%

Structural Bases for the Allergenicity of Fra a 1.02 in Strawberry Fruits

Orozco-Navarrete

Kaczmarska

Dupeux

et al. 2019

J. Agric. Food Chem.

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Although strawberries are highly appreciated fruits, their intake can induce allergic reactions in atopic patients. These reactions can be due to the patient's previous sensitization to the major birch pollen allergen Bet v 1, by which IgE generated in response to Bet v 1 cross-reacts with the structurally related strawberry Fra a 1 protein family. Fra a 1.02 is the most expressed paralog in ripe strawberries and is highly allergenic. To better understand the molecular mechanisms regulating this allergic response, we have determined the three-dimensional structure of Fra a 1.02 and four site-directed mutants that were designed based on their positions in potential epitopes. Fra a 1.02 and mutants conform to the START fold. We show that the cross-reactivity of all the mutant variants to IgE from patients allergic to Bet v 1 was significantly reduced without altering the conserved structural fold, so that they could potentially be used as hypoallergenic Fra a 1 variants for the generation of vaccines against strawberry allergy in atopic patients. Article pubs.acs.org/JAFC Cite This: J. Agric. Food Chem. XXXX, XXX, XXX−XXX

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Automated harvesting and processing of protein crystals through laser photoablation

Abstract: New methods for crystal mounting, soaking and cryocooling contribute to bridging the automation gap between crystallization and X-ray data collection.

Cited by 81 publications

References 47 publications

The impact of cryosolution thermal contraction on proteins and protein crystals: volumes, conformation and order

The impact of cryosolution thermal contraction on proteins and protein crystals: volumes, conformation and order

Recent improvements to the automatic characterization and data collection algorithms on MASSIF-1

Structural Bases for the Allergenicity of Fra a 1.02 in Strawberry Fruits

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