EMBO Practical Course on
Solution Scattering from Biological Macromolecules
November 19—26, 2018
EMBL Hamburg, Germany
Organisers: Dmitri Svergun, Al Kikhney
The course aims at young biochemists/biophysicists and researchers active in related structural methods with little or no experience in solution scattering. The course will cover basics of SAXS/SANS, instrumentation, data collection, modelling techniques and complementary use with other methods. The students are encouraged to bring their own samples to perform synchrotron solution scattering experiments on-site and the results will be used for practical tutorials and discussed on the last day of the course.
The course is supported by BIOSAXS GmbH.
Slides in PDF
Welcome - Dmitri Svergun
Scattering of X-rays (basics) - Patrice Vachette | video
Scattering of neutrons (basics) - Cy Jeffries
Sample preparation and characterisation - Melissa Gräwert
Primary data reduction and analysis - Al Kikhney
Statistics in the experimental practice of SAXS - Daniel Franke
Ab initio methods: how they work - Dmitri Svergun
Rigid body refinement (basics) - Dmitri Svergun
Form and structure factor, interactions, modelling - Petr Konarev
Studies of flexible systems - Dmitri Svergun
Structural characterization of prefibrillar intermediates and amyloid fibrils - Annette Langkilde
Joint use of SAS and AUC - Olwyn Byron
SAXS and biochemical methods - Maria Vanoni
Joint use of SAXS and NMR - Annalisa Pastore
Joint use of SAXS and crystallography - Rob Meijers
Microfluidics, sample delivery and laser illumination - Manfred Roessle
Membrane Proteins: Structural & Functional Challenges - Susana Andrade
High pressure SAXS studies - Martin Schroer
Highly brilliant and coherent XFEL beams for biological macromolecules - Arwen Pearson
Recommended reading
Single copies of the articles below can be downloaded and printed only for the reader's personal research and study.
Books
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Svergun, D.I., Koch, M.H.J., Timmins, P.A., May, R.P. (2013)
Small Angle X-Ray and Neutron Scattering from Solutions of Biological Macromolecules
Oxford University Press
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Feigin, L.A. & Svergun, D.I. (1987)
Structure Analysis by Small-Angle X-Ray and Neutron Scattering
© Plenum Press / Springer
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Reviews
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Jeffries, C.M., Graewert, M.A., Blanchet, C.E., Langley, D.B., Whitten A.E. and Svergun, D.I. (2016)
Preparing monodisperse macromolecular samples for successful biological small-angle X-ray and neutron-scattering experiments
Nature Protocols 11, 2122-2153
DOI
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Blanchet, C.E. & Svergun, D.I. (2013)
Small-angle X-ray scattering on biological macromolecules and nanocomposites in solution.
Annu. Rev. Phys. Chem. 64, 37-54
© Annual Reviews DOI
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Mertens H.D.T. & Svergun D.I. (2010)
Structural characterization of proteins and complexes using small-angle X-ray solution scattering.
J. Struct. Biol. 172(1), 128-41
© Elsevier DOI
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Kikhney, A.G. and Svergun, D.I (2015)
A practical guide to small angle X-ray scattering (SAXS) of flexible and intrinsically disordered proteins.
FEBS Lett. 589(19A), 2570-2577
DOI
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ATSAS
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Franke, D., Petoukhov, M.V., Konarev, P.V., Panjkovich, A., Tuukkanen, A., Mertens, H.D.T., Kikhney, A.G., Hajizadeh, N.R., Franklin, J.M., Jeffries, C.M. and Svergun, D.I. (2017)
ATSAS 2.8: a comprehensive data analysis suite for small-angle scattering from macromolecular solutions.
J. Appl. Cryst. 50, 1212-1225
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GNOM
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Svergun D.I. (1992)
Determination of the regularization parameter in indirect-transform methods using perceptual criteria.
J. Appl. Crystallogr. 25, 495-503
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DAMMIN
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Svergun, D. I. (1999)
Restoring low resolution structure of biological macromolecules from solution scattering using simulated annealing.
Biophys. J. 76, 2879-2886
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DAMMIF
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Franke, D. and Svergun, D.I. (2009)
DAMMIF, a program for rapid ab-initio shape determination in small-angle scattering.
J. Appl. Cryst., 42, 342-346
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GASBOR
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Svergun, D.I., Petoukhov, M.V. & Koch, M.H.J. (2001)
Determination of domain structure of proteins from X-ray solution scattering.
Biophys. J. 80, 2946-2953
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CRYSOL
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Svergun D.I., Barberato C., & Koch M.H.J. (1995)
CRYSOL - a program to evalate X-ray solution scattering of biological macromolecules from atomic coordinates.
J. Appl. Crystallogr. 28, 768-773
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SASREF,
BUNCH
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Petoukhov, M.V. & Svergun, D.I. (2005)
Global rigid body modelling of macromolecular complexes against
small-angle scattering data.
Biophys. J. 89, 1237-1250
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EOM
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Tria, G., Mertens, H. D. T., Kachala, M. & Svergun, D. I. (2015)
Advanced ensemble modelling of flexible macromolecules using X-ray solution scattering. IUCrJ 2, 207-217
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SASBDB
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Valentini, E., Kikhney, A.G., Previtali, G., Jeffries, C.M. and Svergun D.I. (2014)
SASBDB, a repository for biological small-angle scattering data
Nucleic Acids Res. 43(D1), D357-D363
DOI
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DARA
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Kikhney, A.G., Panjkovich, A., Sokolova, A.V. & Svergun, D.I. (2016)
DARA: a web server for rapid search of structural neighbours using solution small angle X-ray scattering data.
Bioinformatics 32(4), 616-618
DOI
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