Skip to main content

Small-Angle Scattering and Neutron Contrast Variation for Studying Bio-Molecular Complexes

  • Protocol
  • First Online:
Micro and Nano Technologies in Bioanalysis

Part of the book series: Methods in Molecular Biology™ ((MIMB,volume 544))

Summary

Structural molecular biology over the past several decades has progressed from studies of the individual proteins, subunits, and domains that accomplish specific biochemistry to seeking to understand the dynamic bio-molecular complexes and assemblies that are responsible for biological function. This progress has led to an expansion of the structural analysis “tool box” to include methods that complement the mainstay techniques of the field: X-ray crystallography, nuclear magnetic resonance (NMR), and cryo-electron microscopy. Small-angle scattering of X-rays or neutrons is one such complementary technique that provides information on the size and shape of scattering particles in solution. This low-resolution structural information can be a powerful complement to high-resolution structural data, especially for the study of bio-molecular interactions with ligands or each other. Further, exploitation of the different neutron-scattering properties of the stable isotopes of hydrogen (1H and 2H) can be used to enrich the information available from the small-angle scattering data, especially for bio-molecular complexes.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Protocol
USD 49.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 89.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 119.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book
USD 169.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

References

  1. Svergun, D. I. and Koch, M. H. J. (2003). Small-Angle Scattering Studies of Biological Macromolecules in Solution. Rep. Prog. Phys. 66, 1735–1782

    Article  CAS  Google Scholar 

  2. Petoukhov, M. V. and Svergun, D. I. (2005). Global Rigid Body Modeling of Macromolecular Complexes against Small-Angle Scattering Data. Biophys. J. 89, 1237–1250

    Article  CAS  Google Scholar 

  3. Guinier, A. and Fournet, G. (eds.) (1955). Small-Angle Scattering of X-rays. Wiley, New York

    Google Scholar 

  4. Ibel, K. and Stuhrmann, H. B. (1975). Comparison of Neutron and X-Ray-Scattering of Dilute Myoglobin Solutions. J. Mol. Biol. 93, 255–265

    Article  CAS  Google Scholar 

  5. Moore, P. B., Engelman, D. M., and Schoenborn, B. P. (1974). Asymmetry in 50s Ribosomal-Subunit of Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 71, 172–176

    Article  CAS  Google Scholar 

  6. Damaschun, G., Fichtner, P., Purschel, H. V., and Reich, J. G. (1968). Studies on Quaternary Structure of Proteins by Small Angle Scattering of X-Rays.2. On Structure of Complex of Trypsin with Soyabean Inhibitor. Acta Biol. Med. Ger. 21, 309–316

    Google Scholar 

  7. Serdyuk, I. N. and Fedorov, B. A. (1973). New Method of Studying Structure of Block Copolymers in Solution. J. Polym. Sci. Pol. Lett. 11, 645–649

    Article  CAS  Google Scholar 

  8. Semenyuk, A. V. and Svergun, D. I. (1991). Gnom – a Program Package for Small-Angle Scattering Data-Processing. J. Appl. Crystallogr. 24, 537–540

    Article  Google Scholar 

  9. Bergmann, A., Fritz, G., and Glatter, O. (2000). Solving the Generalized Indirect Fourier Transformation (GIFT) by Boltzmann Simplex Simulated Annealing (BSSA). J. Appl. Crystallogr. 33, 1212–1216

    Article  CAS  Google Scholar 

  10. Svergun, D. I. (1999). Restoring Low Resolution Structure of Biological Macromolecules from Solution Scattering Using Simulated Annealing. Biophys. J. 76, 2879–2886

    Article  CAS  Google Scholar 

  11. Chacon, P., Moran, F., Diaz, J. F., Pantos, E., and Andreu, J. M. (1998). Low-Resolution Structures of Proteins in Solution Retrieved From X-Ray Scattering With a Genetic Algorithm. Biophys. J. 74, 2760–2775

    Article  CAS  Google Scholar 

  12. Petoukhov, M. V. and Svergun, D. I. (2006). Joint Use of Small-Angle X-Ray and Neutron Scattering to Study Biological Macromolecules in Solution. Eur. Biophys. J. Biophys. Lett. 35, 567–576

    Article  CAS  Google Scholar 

  13. Glinka, C. J., Barker, J. G., Hammouda, B., Krueger, S., Moyer, J. J., and Orts, W. J. (1998) The 30 M Small-Angle Neutron Scattering Instruments at the National Institute of Standards and Technology. J. Appl. Crystallogr. 31, 430–445

    Article  CAS  Google Scholar 

  14. Orthaber, D., Bergmann, A., and Glatter, O. (2000). SAXS Experiments on Absolute Scale With Kratky Systems Using Water as a Secondary Standard. J. Appl. Crystallogr. 33, 218–225

    Article  CAS  Google Scholar 

  15. Mylonas, E. and Svergun, D. I. (2007). Accuracy of Molecular Mass Determination of Proteins in Solution by Small-Angle X-Ray Scattering. J. Appl. Crystallogr. 40, S245–S249

    Article  CAS  Google Scholar 

  16. Kozak, M. (2005). Glucose Isomerase From Streptomyces rubiginosus – Potential Molecular Weight Standard for Small-Angle X-Ray Scattering. J. Appl. Crystallogr. 38, 555–558

    Article  CAS  Google Scholar 

  17. King, W. A., Stone, D. B., Timmins, P. A., Narayanan, T., Von Brasch, A. A. M., Mendelson, R.A., and Curmi, P.M.G. (2005). Solution Structure of the Chicken Skeletal Muscle Troponin Complex Via Small-Angle Neutron and X-Ray Scattering. J. Mol. Biol. 345, 797–815

    Article  CAS  Google Scholar 

  18. Leiting, B., Marsilio, F., and O’Connell, J. F. (1998). Predictable Deuteration of Recombinant Proteins Expressed in Escherichia coli. Anal. Biochem. 265, 351–355

    Article  CAS  Google Scholar 

  19. Jacrot, B. (1976). Study of Biological Structures by Neutron-Scattering From Solution. Rep. Prog. Phys. 39, 911–953

    Article  CAS  Google Scholar 

  20. Whitten, A. E., Jacques, D. A., Hammouda, B., Hanley, T., King, G. F., Guss, J. M., Trewhella, J., and Langley, D. B. (2007). The Structure of the KinA-Sda Complex Suggests an Allosteric Mechanism of Histidine Kinase Inhibition. J. Mol. Biol. 368, 407–420

    Article  CAS  Google Scholar 

  21. Whitten, A. E., Cai, S., and Trewhella, J. (2008). MULCh: ModULes for the Analysis of Small-Angle Neutron Contrast Variation Data from Bio-molecular Assemblies. J. Appl. Crystallogr. 41, 222–226

    Article  CAS  Google Scholar 

  22. Konarev, P. V., Volkov, V. V., Sokolova, A. V., Koch, M. H. J., and Svergun, D. I. (2003). Primus: a Windows Pc-Based System for Small-Angle Scattering Data Analysis. J. Appl. Crystallogr. 36, 1277–1282

    Article  CAS  Google Scholar 

  23. http://physchem.kfunigraz.ac.at/sm/Service/Water/H2OI0.htm

  24. Taraban, M., Zhan, H., Whitten, A. E., Langley, D. B., Matthews, K. S., Swint-Kruse, L., and Trewhella, J. (2008). Ligand-Induced Conformational Changes and Conformational Dynamics in the Solution Structure of the Lactose Repressor Protein. J. Mol. Biol. 376, 466–481

    Article  CAS  Google Scholar 

  25. Pedersen, J. S., Posselt, D., and Mortensen, K. (1990). Analytical Treatment of the Resolution Function for Small-Angle Scattering. J. Appl. Crystallogr. 23, 321–333

    Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Jill Trewhella .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2009 Humana Press, a part of Springer Science+Business Media, LLC

About this protocol

Cite this protocol

Whitten, A.E., Trewhella, J. (2009). Small-Angle Scattering and Neutron Contrast Variation for Studying Bio-Molecular Complexes. In: Foote, R., Lee, J. (eds) Micro and Nano Technologies in Bioanalysis. Methods in Molecular Biology™, vol 544. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-59745-483-4_20

Download citation

  • DOI: https://doi.org/10.1007/978-1-59745-483-4_20

  • Published:

  • Publisher Name: Humana Press, Totowa, NJ

  • Print ISBN: 978-1-934115-40-4

  • Online ISBN: 978-1-59745-483-4

  • eBook Packages: Springer Protocols

Publish with us

Policies and ethics