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EMBL Online Lecture Course on

Solution Scattering from Biological Macromolecules

May 5 — June 2, 2020
Tuesdays and Thursdays 9:20-10:30, CEST (UTC +2)
Organisers: Dmitri Svergun, Melissa Gräwert, Al Kikhney

This online 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, instrumentation, sample preparation, modelling techniques and complementary use with other methods. Participants are encouraged to send their questions/comments through the text chat during/after the lectures.

The course is supported by BIOSAXS GmbH.

Programme/slides

Q & A
Session 1: Introduction and basics - Dmitri Svergun - Tuesday May 5, 2020
Session 2: SAXS instrumentation - Clément Blanchet - Thursday May 7
Session 3: Sample and buffer preparation - Melissa Gräwert - Tuesday May 12 | video
Session 4: Data processing and ab initio analysis - Al Kikhney - Thursday May 14
Session 5: Hybrid rigid body modelling - Al Kikhney - Tuesday May 19 | video
Session 6: SAXS studies on mixtures, assemblies, flexible systems - Melissa Gräwert - Tuesday May 26
Session 7: Beyond standard BioSAXS - Thursday May 28:
Anomalous small angle X-ray scattering (ASAXS) - Andrey Gruzinov
BioSAXS - special applications - Martin Schroer
Session 8 - Tuesday June 2:
Modelling viral RNA with SAXS - Grzegorz Chojnowski
Summary, perspectives, Q&A - Dmitri Svergun
Session 9 - Tuesday July 7, 17:20:
Selection and structural analysis of sybodies neutralizing SARS-CoV-2 - Dmitri Svergun
From data to publication: a walk through ATSAS programs and data deposition - Al Kikhney | video

Recommended reading

Single copies of the articles below can be downloaded and printed only for the reader's personal research and study.

Books	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
	Feigin, L.A. & Svergun, D.I. (1987) Structure Analysis by Small-Angle X-Ray and Neutron Scattering © Plenum Press / Springer
Publication gudelines	Trewhella et al. (2017) 2017 publication guidelines for structural modelling of small-angle scattering data from biomolecules in solution: an update Acta Crystallogr D Struct Biol 73(9), 710-728 DOI
Reviews	Graewert, M.A. and Svergun, D.I. (2020) A beginner's guide to solution small-angle X-ray scattering (SAXS) Biochem (Lond) 42(1), 36-42 DOI
	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
	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
	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
	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
ATSAS	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
GNOM	Svergun D.I. (1992) Determination of the regularization parameter in indirect-transform methods using perceptual criteria. J. Appl. Crystallogr. 25, 495-503
DAMMIN	Svergun, D. I. (1999) Restoring low resolution structure of biological macromolecules from solution scattering using simulated annealing. Biophys. J. 76, 2879-2886
DAMMIF	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
GASBOR	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
CRYSOL	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
SASREF, BUNCH	Petoukhov, M.V. & Svergun, D.I. (2005) Global rigid body modelling of macromolecular complexes against small-angle scattering data. Biophys. J. 89, 1237-1250
EOM	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
SASBDB	Kikhney A.G., Borges C.R., Molodenskiy D.S., Jeffries C.M., Svergun D.I. (2020) SASBDB: Towards an automatically curated andvalidated repository for biological scattering data Protein Science 29(1); 66-75 DOI

Last modified: March 22, 2021