SANS simulation of aggregated protein in aqueous solution

Masaaki Sugiyama, Kei Hamada, Koichi Kato, Eiji Kurimoto, Kenta Okamoto, Yukio Morimoto, Susumu Ikeda, Sachio Naito, Michihiko Furusaka, Keiji Itoh, Kazuhiro Mori, Toshiharu Fukunaga

Research output: Contribution to journalArticle

8 Citations (Scopus)

Abstract

Small-angle neutron scattering (SANS) of aggregated protein in an aqueous solution is simulated based on the crystallographic data of the protein. After obtaining the crystallographic data of the target protein, hydrogen atoms are added to the data and then some hydrogen atoms are replaced with deuterium atoms. The structure models are made with this data and then their gyration radii and SANS intensities are calculated. Compared the calculated SANS data with the experimental one, the most probable structure is determined. With this analysis method, the aggregate structure of proteasome α7-subunit (PRSα) in an aqueous solution was investigated. Three structural models, a simple monomer and two types of dimers, were supposed as the aggregated structure of PRSα. The analysis showed that the best compromised structure was the dimer, which was consistent with electron microscopy observation.

Original languageEnglish
Pages (from-to)272-274
Number of pages3
JournalNuclear Instruments and Methods in Physics Research, Section A: Accelerators, Spectrometers, Detectors and Associated Equipment
Volume600
Issue number1
DOIs
Publication statusPublished - Feb 21 2009
Externally publishedYes

Fingerprint

Neutron scattering
neutron scattering
aqueous solutions
proteins
Proteins
Dimers
Atoms
hydrogen atoms
dimers
Hydrogen
simulation
gyration
Deuterium
Model structures
Electron microscopy
deuterium
electron microscopy
monomers
Monomers
radii

Keywords

  • Complex protein
  • Large structure analysis
  • Proteasome
  • SANS
  • Solution scattering

ASJC Scopus subject areas

  • Instrumentation
  • Nuclear and High Energy Physics

Cite this

SANS simulation of aggregated protein in aqueous solution. / Sugiyama, Masaaki; Hamada, Kei; Kato, Koichi; Kurimoto, Eiji; Okamoto, Kenta; Morimoto, Yukio; Ikeda, Susumu; Naito, Sachio; Furusaka, Michihiko; Itoh, Keiji; Mori, Kazuhiro; Fukunaga, Toshiharu.

In: Nuclear Instruments and Methods in Physics Research, Section A: Accelerators, Spectrometers, Detectors and Associated Equipment, Vol. 600, No. 1, 21.02.2009, p. 272-274.

Research output: Contribution to journalArticle

Sugiyama, M, Hamada, K, Kato, K, Kurimoto, E, Okamoto, K, Morimoto, Y, Ikeda, S, Naito, S, Furusaka, M, Itoh, K, Mori, K & Fukunaga, T 2009, 'SANS simulation of aggregated protein in aqueous solution', Nuclear Instruments and Methods in Physics Research, Section A: Accelerators, Spectrometers, Detectors and Associated Equipment, vol. 600, no. 1, pp. 272-274. https://doi.org/10.1016/j.nima.2008.11.121
Sugiyama, Masaaki ; Hamada, Kei ; Kato, Koichi ; Kurimoto, Eiji ; Okamoto, Kenta ; Morimoto, Yukio ; Ikeda, Susumu ; Naito, Sachio ; Furusaka, Michihiko ; Itoh, Keiji ; Mori, Kazuhiro ; Fukunaga, Toshiharu. / SANS simulation of aggregated protein in aqueous solution. In: Nuclear Instruments and Methods in Physics Research, Section A: Accelerators, Spectrometers, Detectors and Associated Equipment. 2009 ; Vol. 600, No. 1. pp. 272-274.
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