Fast fragment- and compound-screening pipeline at the Swiss Light Source.

FFCS automation fragment-based drug discovery high throughput protein crystallography software

Journal

Acta crystallographica. Section D, Structural biology
ISSN: 2059-7983
Titre abrégé: Acta Crystallogr D Struct Biol
Pays: United States
ID NLM: 101676043

Informations de publication

Date de publication:
01 Mar 2022
Historique:
received: 03 09 2021
accepted: 19 01 2022
entrez: 2 3 2022
pubmed: 3 3 2022
medline: 5 4 2022
Statut: ppublish

Résumé

Over the last two decades, fragment-based drug discovery (FBDD) has emerged as an effective and efficient method to identify new chemical scaffolds for the development of lead compounds. X-ray crystallography can be used in FBDD as a tool to validate and develop fragments identified as binders by other methods. However, it is also often used with great success as a primary screening technique. In recent years, technological advances at macromolecular crystallography beamlines in terms of instrumentation, beam intensity and robotics have enabled the development of dedicated platforms at synchrotron sources for FBDD using X-ray crystallography. Here, the development of the Fast Fragment and Compound Screening (FFCS) platform, an integrated next-generation pipeline for crystal soaking, handling and data collection which allows crystallography-based screening of protein crystals against hundreds of fragments and compounds, at the Swiss Light Source is reported.

Identifiants

pubmed: 35234147
pii: S2059798322000705
doi: 10.1107/S2059798322000705
pmc: PMC8900825
doi:

Substances chimiques

Proteins 0

Types de publication

Journal Article

Langues

eng

Sous-ensembles de citation

IM

Pagination

328-336

Subventions

Organisme : Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung
ID : 198290

Informations de copyright

open access.

Références

Acta Crystallogr D Biol Crystallogr. 2011 Apr;67(Pt 4):355-67
pubmed: 21460454
Acta Crystallogr D Biol Crystallogr. 2012 Oct;68(Pt 10):1393-9
pubmed: 22993093
Curr Top Med Chem. 2007;7(16):1568-81
pubmed: 17979768
Acta Crystallogr D Struct Biol. 2021 Jun 1;77(Pt 6):799-808
pubmed: 34076593
Acta Crystallogr D Biol Crystallogr. 2010 Apr;66(Pt 4):486-501
pubmed: 20383002
Acta Crystallogr D Struct Biol. 2017 Feb 1;73(Pt 2):112-122
pubmed: 28177307
Acta Crystallogr D Struct Biol. 2019 Oct 1;75(Pt 10):861-877
pubmed: 31588918
Drug Discov Today. 2003 Oct 1;8(19):876-7
pubmed: 14554012
Curr Opin Chem Biol. 2004 Jun;8(3):255-63
pubmed: 15183323
Methods Enzymol. 2011;493:321-56
pubmed: 21371597
Acta Crystallogr D Struct Biol. 2018 Feb 1;74(Pt 2):85-97
pubmed: 29533234
J Synchrotron Radiat. 2018 Jan 1;25(Pt 1):293-303
pubmed: 29271779
Essays Biochem. 2017 Nov 8;61(5):475-484
pubmed: 29118094
J Synchrotron Radiat. 2020 May 1;27(Pt 3):860-863
pubmed: 32381791
Acta Crystallogr F Struct Biol Commun. 2016 May;72(Pt 5):346-55
pubmed: 27139825
Acta Crystallogr D Struct Biol. 2020 Aug 1;76(Pt 8):771-777
pubmed: 32744259
Methods Enzymol. 2018;610:251-264
pubmed: 30390801
Angew Chem Int Ed Engl. 2021 Aug 9;60(33):18231-18239
pubmed: 34097796
PLoS Comput Biol. 2016 Mar 10;12(3):e1004794
pubmed: 26963394
Structure. 2020 Jun 2;28(6):694-706.e5
pubmed: 32413289
ACS Chem Biol. 2020 Mar 20;15(3):618-625
pubmed: 32101404
Acta Crystallogr D Struct Biol. 2017 Mar 1;73(Pt 3):246-255
pubmed: 28291760
J Med Chem. 2011 Nov 24;54(22):7784-96
pubmed: 21972967
Acta Crystallogr D Biol Crystallogr. 2009 Oct;65(Pt 10):1074-80
pubmed: 19770504
J Med Chem. 2020 Dec 24;63(24):15494-15507
pubmed: 33226222
J Chem Inf Model. 2013 Aug 26;53(8):1893-904
pubmed: 23379370
Acta Crystallogr D Biol Crystallogr. 2011 Apr;67(Pt 4):293-302
pubmed: 21460447
J Vis Exp. 2021 May 29;(171):
pubmed: 34125095
Acta Crystallogr D Struct Biol. 2017 Mar 1;73(Pt 3):267-278
pubmed: 28291762
Structure. 2016 Aug 2;24(8):1398-1409
pubmed: 27452405
J Biomol Screen. 2003 Apr;8(2):210-5
pubmed: 12844443
Nat Rev Drug Discov. 2016 Sep;15(9):605-619
pubmed: 27417849
J Biomol Screen. 2006 Oct;11(7):864-9
pubmed: 16973922
J Vis Exp. 2021 Mar 3;(169):
pubmed: 33749678
Acta Crystallogr D Struct Biol. 2021 Jan 1;77(Pt 1):62-74
pubmed: 33404526

Auteurs

Jakub W Kaminski (JW)

Swiss Light Source, Paul Scherrer Institute, 5232 Villigen PSI, Switzerland.

Laura Vera (L)

Swiss Light Source, Paul Scherrer Institute, 5232 Villigen PSI, Switzerland.

Dennis P Stegmann (DP)

Department of Cellular Microbiology, Institute of Biology, University of Hohenheim, 70599 Stuttgart, Germany.

Jonatan Vering (J)

Department of Cellular Microbiology, Institute of Biology, University of Hohenheim, 70599 Stuttgart, Germany.

Deniz Eris (D)

Swiss Light Source, Paul Scherrer Institute, 5232 Villigen PSI, Switzerland.

Kate M L Smith (KML)

Swiss Light Source, Paul Scherrer Institute, 5232 Villigen PSI, Switzerland.

Chia Ying Huang (CY)

Swiss Light Source, Paul Scherrer Institute, 5232 Villigen PSI, Switzerland.

Nathalie Meier (N)

Swiss Light Source, Paul Scherrer Institute, 5232 Villigen PSI, Switzerland.

Julia Steuber (J)

Department of Cellular Microbiology, Institute of Biology, University of Hohenheim, 70599 Stuttgart, Germany.

Meitian Wang (M)

Swiss Light Source, Paul Scherrer Institute, 5232 Villigen PSI, Switzerland.

Günter Fritz (G)

Department of Cellular Microbiology, Institute of Biology, University of Hohenheim, 70599 Stuttgart, Germany.

Justyna A Wojdyla (JA)

Swiss Light Source, Paul Scherrer Institute, 5232 Villigen PSI, Switzerland.

May E Sharpe (ME)

Swiss Light Source, Paul Scherrer Institute, 5232 Villigen PSI, Switzerland.

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