Protein & Cell >

2015 , Vol. 6 >Issue 8: 619 - 623

DOI: https://doi.org/10.1007/s13238-015-0162-4

LETTER

Determining structural ensembles of flexible multi-domain proteins using small-angle X-ray scattering and molecular dynamics simulations

  • Yonghui Zhang 1 ,
  • Bin Wen 1 ,
  • Junhui Peng 1 ,
  • Xiaobing Zuo 2 ,
  • Qingguo Gong 1 ,
  • Zhiyong Zhang , 1
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  • 1. Hefei National Laboratory for Physical Science at Microscale and School of Life Sciences, University of Science and Technology of China, Hefei 230026, China
  • 2. Advanced Photon Source, Argonne National Laboratory, Chicago, IL 60437, USA

Published date: 05 Aug 2015

Copyright

2014 This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
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Cite this article

Yonghui Zhang , Bin Wen , Junhui Peng , Xiaobing Zuo , Qingguo Gong , Zhiyong Zhang . Determining structural ensembles of flexible multi-domain proteins using small-angle X-ray scattering and molecular dynamics simulations[J]. Protein & Cell, 2015 , 6(8) : 619 -623 . DOI: 10.1007/s13238-015-0162-4

References

Publishing order | Descend order by publishing year | Descend order by cited within
1
Arkhipov A, Shan Y, Das R, Endres NF, Eastwood MP, Wemmer DE, Kuriyan J, Shaw DE (2013) Architecture and membrane interactions of the EGF receptor. Cell 152: 557-569

DOI

2
Bedford MT, Reed R, Leder P (1998) WW domain-mediated interactions reveal a spliceosome-associated protein that binds a third class of proline-rich motif: The proline glycine and methionine-rich motif. Proc Natl Acad Sci USA 95: 10602-10607

DOI

3
Bernadó P, Blackledge M (2010) Proteins in dynamic equilibrium. Nature 468: 1046-1048

DOI

4
Bernadó P, Mylonas E, Petoukhov MV, Blackledge M, Svergun DI (2007) Structural characterization of flexible proteins using smallangle X-ray scattering. J Am Chem Soc 129: 5656-5664

DOI

5
Dror RO, Dirks RM, Grossman JP, Xu HF, Shaw DE (2012) Biomolecular simulation: a computational microscope for molecular biology. Annu Rev Biophys 41: 429-452

DOI

6
Graewert MA, Svergun DI (2013) Impact and progress in small and wide angle X-ray scattering (SAXS and WAXS). Curr Opin Struct Biol 23: 748-754

DOI

7
Grishaev A, Wu J, Trewhella J, Bax A (2005) Refinement of multidomain protein structures by combination of solution smallangle X-ray scattering and NMR data. J Am Chem Soc 127: 16621-16628

DOI

8
Huang X, Beullens M, Zhang J, Zhou Y, Nicolaescu E, Lesage B, Hu Q, Wu J, Bollen M, Shi Y (2009) Structure and function of the two tandem WW domains of the pre-mRNA splicing factor FBP21 (Formin-binding protein 21). J Biol Chem 284: 25375-25387

DOI

9
Ma W, Schulten K (2015) Mechanism of substrate translocation by a ring-shaped ATPase motor at millisecond resolution. J Am Chem Soc 137: 3031-3040

DOI

10
Pelikan M, Hura GL, Hammel M(2009) Structure and flexibility within proteins as identified through small angle X-ray scattering. Gen Physiol Biophys 28: 174-189

DOI

11
Różycki B, Kim YC, Hummer G (2011) SAXS ensemble refinement of ESCRT-III CHMP3 conformational transitions. Structure 19: 109-116

DOI

12
Schneidman-Duhovny D, Kim SJ, Sali A (2012) Integrative structural modeling with small angle X-ray scattering profiles. BMC Struct Biol 12: 17

DOI

13
Wen B, Peng JH, Zuo XB, Gong QG, Zhang ZY (2014) Characterization of protein flexibility using small-angle X-ray scattering and amplified collective motion simulations. Biophys J 107: 956-964

DOI

14
Yang S (2014) Methods for SAXS-based structure determination of biomolecular complexes. Adv Mater 26: 7902-7910

DOI

15
Yang SC, Blachowicz L, Makowski L, Roux B (2010) Multidomain assembled states of Hck tyrosine kinase in solution. Proc Natl Acad Sci USA 107: 15757-15762

DOI

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