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EMBL Hamburg Biological
Small Angle Scattering 		BioSAXS
SASBDB
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EMBO Practical Course on

Solution Scattering from Biological Macromolecules

October 17—24, 2016
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.

BIOSAXS   The course is supported by BIOSAXS GmbH.

 

Slides in PDF

  • Welcome - Dmitri Svergun
  • Scattering of X-rays (basics) - Patrice Vachette
  • Scattering of neutrons (basics) - Jill Trewhella
  • Sample preparation and characterisation - Melissa Gräwert
  • Primary data reduction and analysis - Al Kikhney
  • Ab initio methods: how they work - Dmitri Svergun
  • Ab initio modelling tutorial I - Daniel Franke
  • Ab initio modelling tutorial II - Maxim Petoukhov
  • Rigid body refinement (basics) - Dmitri Svergun
  • SASpy - ATSAS PyMOL plugin tutorial - Alejandro Panjkovich
  • SREFLEX: SAXS REFinement through FLEXibility - tutorial - Alejandro Panjkovich
  • Form and structure factors: modeling and interactions - Jan Skov Pedersen
  • Studies of flexible systems - Haydyn Mertens
  • High pressure SAXS studies - Martin Schroer
  • Structural studies of amyloidogenic peptides and proteins - Annette Eva Langkilde
  • Joint use of SAS and AUC - Olwyn Byron
  • SAXS and biochemistry - Maria Vanoni
  • NMR and SAXS: two complementary techniques - Annalisa Pastore
  • Combining SAXS and crystallography - Rob Meijers
  • Microfluidics, sample delivery and free electron lasers - Manfred Roessle
  • Membrane Proteins: Structural & Functional Challenges - Susana Andrade
  • Progress in electron cryo microscopy - Kay Grünewald
  • Validation of macromolecular structures - Anne Tuukkanen
  • Before and after your SAXS experiment - Dmitri Svergun
  • How to prepare a «perfect» (?) SAS beamtime application - Maria Vanoni

    • 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
    Reviews 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 Petoukhov, M.V., Franke, D., Shkumatov, A.V., Tria, G., Kikhney, A.G., Gajda, M., Gorba, C., Mertens, H.D.T., Konarev, P.V. and Svergun, D.I. (2012)
    New developments in the ATSAS program package for small-angle scattering data analysis.
    J. Appl. Cryst. 45, 342-350
      Petoukhov, M.V., Konarev, P.V., Kikhney A.G. & Svergun, D.I. (2007)
    ATSAS 2.1 - towards automated and web-supported small-angle scattering data analysis.
    J. Appl. Cryst. 40, s223-s228
    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 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

      Last modified: November 1, 2016
    © BioSAXS group 2016