Plant Structural Biology: Hormonal Regulations pp 277-293 | Cite as
Biological Small-Angle X-Ray Scattering (SAXS)
Chapter
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Abstract
Small angle X-ray scattering (SAXS) method for studies of biological macromolecules in solution is briefly described. A short introduction to the basic physical principles is followed by the description of SAXS experiment and an overview of modeling approaches used in scattering data analysis. Practical aspects, advantages, and limitations of the method are discussed.
References
- Berman HM (2000) The Protein Data Bank. Nucleic Acids Res 28:235–242CrossRefPubMedPubMedCentralGoogle Scholar
- Bernadó P, Mylonas E, Petoukhov MV, Blackledge M, Svergun DI (2007) Structural characterization of flexible proteins using small-angle X-ray scattering. J Am Chem Soc 129:5656–5664CrossRefPubMedGoogle Scholar
- Debye PZ v R (1915) Ann Phys 351:809–823CrossRefGoogle Scholar
- Glatter O, Kratky O (1982) Structure analysis by small-angle X-ray and neutron scattering. Academic Press, New YorkGoogle Scholar
- Grishaev A, Guo L, Irving T, Bax A (2010) Improved fitting of solution X-ray scattering data to macromolecular structures and structural ensembles by explicit water modeling. J Am Chem Soc 132:15484–15486CrossRefPubMedPubMedCentralGoogle Scholar
- Guinier A (1939) La diffraction des rayons X aux très petits angles : application à l’étude de phénomènes ultramicroscopiques. Ann Phys 11:161–237CrossRefGoogle Scholar
- Jeffries CM et al (2016) Preparing monodisperse macromolecular samples for successful biological small-angle X-ray and neutron-scattering experiments. Nat Protoc 11:2122–2153CrossRefPubMedPubMedCentralGoogle Scholar
- Konarev PV, Volkov VV, Sokolova AV, Koch MHJ, Svergun DI (2003) PRIMUS: a windows PC-based system for small-angle scattering data analysis. J Appl Crystallogr 36:1277–1282CrossRefGoogle Scholar
- Mylonas E, Svergun DI (2007) Accuracy of molecular mass determination of proteins in solution by small-angle X-ray scattering. J Appl Crystallogr 40:s245–s249CrossRefGoogle Scholar
- Ozenne V et al (2012) Flexible-meccano: a tool for the generation of explicit ensemble descriptions of intrinsically disordered proteins and their associated experimental observables. Bioinformatics 28:1463–1470CrossRefPubMedGoogle Scholar
- Panjkovich A, Svergun DI (2016) Deciphering conformational transitions of proteins by small angle X-ray scattering and normal mode analysis. Phys Chem Chem Phys 18:5707–5719CrossRefPubMedGoogle Scholar
- Petoukhov MV, Svergun DI (2005) Global rigid body modeling of macromolecular complexes against small-angle scattering data. Biophys J 89:1237–1250CrossRefPubMedPubMedCentralGoogle Scholar
- Petoukhov MV et al (2012) New developments in the ATSAS program package for small-angle scattering data analysis. J Appl Crystallogr 45:342–350CrossRefPubMedPubMedCentralGoogle Scholar
- Porod G (1951) Die Röntgenkleinwinkelstreuung von dichtgepackten kolloiden Systemen: I. Teil. Kolloid-Z 124:83–114CrossRefGoogle Scholar
- Rambo RP, Tainer JA (2013) Accurate assessment of mass, models and resolution by small-angle scattering. Nature 496:477–481CrossRefPubMedPubMedCentralGoogle Scholar
- Schneidman-Duhovny D, Hammel M, Sali A (2010) FoXS: a web server for rapid computation and fitting of SAXS profiles. Nucleic Acids Res 38:W540–W544CrossRefPubMedPubMedCentralGoogle Scholar
- Svergun DI (1992) Determination of the regularization parameter in indirect-transform methods using perceptual criteria. J Appl Crystallogr 25:495–503CrossRefGoogle Scholar
- Svergun D, Barberato C, Koch MHJ (1995) CRYSOL – a program to evaluate X-ray solution scattering of biological macromolecules from atomic coordinates. J Appl Crystallogr 28:768–773CrossRefGoogle Scholar
- Svergun DI (1999) Restoring low resolution structure of biological macromolecules from solution scattering using simulated annealing. Biophys J 76:2879–2886CrossRefPubMedPubMedCentralGoogle Scholar
- Svergun DI, Petoukhov MV, Koch MHJ (2001) Determination of domain structure of proteins from X-ray solution scattering. Biophys J 80:2946–2953CrossRefPubMedPubMedCentralGoogle Scholar
- Svergun DI, Koch MHJ, Timmins PA, May RP (2013) Small angle x-ray and neutron scattering from solutions of biological macromolecules. Oxford University PressGoogle Scholar
- Trewhella J et al (2017) 2017 publication guidelines for structural modelling of small-angle scattering data from biomolecules in solution: an update. Acta Crystallogr Sect Struct Biol 73:710–728CrossRefGoogle Scholar
- Tuukkanen AT, Kleywegt GJ, Svergun DI (2016) Resolution of ab initio shapes determined from small-angle scattering. IUCrJ 3:440–447CrossRefPubMedPubMedCentralGoogle Scholar
- Valentini E, Kikhney AG, Previtali G, Jeffries CM, Svergun DI (2015) SASBDB, a repository for biological small-angle scattering data. Nucleic Acids Res 43:D357–D363CrossRefPubMedGoogle Scholar
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