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1

Structural characteristics of hydration sites in lysozyme

Kunitsugu Soda, Yudai Shimbo, Yasutaka Seki, Makoto Taiji

Journal:

Biophysical Chemistry

Year:

2011

Language:

english

File:

PDF, 1.61 MB

english, 2011

2

A New Efficient Method for Generating Conformations of Unfolded Proteins with Diverse Main-Chain Dihedral-Angle Distributions

Seki, Yasutaka, Shimbo, Yudai, Nonaka, Takamasa, Soda, Kunitsugu

Journal:

Journal of Chemical Theory and Computation

Year:

2011

Language:

english

File:

PDF, 2.17 MB

english, 2011

3

The Effect of Molecular Conformation on the Accuracy of Theoretical 1 H and 13 C Chemical Shifts Calculated by ab initio Methods for Metabolic Mixture Analysis

Chikayama, Eisuke, Shimbo, Yudai, Komatsu, Keiko, Kikuchi, Jun

Journal:

Journal of Physical Chemistry B

Year:

2016

Language:

english

File:

PDF, 1.88 MB

english, 2016

4

2P-080 Dynamical Properties of Proteins as Analyzed by Molecular Volume Fluctuation(The 46th Annual Meeting of the Biophysical Society of Japan)

Soda, Kunitsugu, Seki, Yasutaka, Shimbo, Yudai, Matsumoto, Hiroki, Fujii, Jumpei

Journal:

Seibutsu Butsuri

Year:

2008

Language:

english

File:

PDF, 284 KB

english, 2008

5

1P-059 Effects of Pressure on Volume-Fluctuation Dynamics of Proteins(Protein:Property, The 47th Annual Meeting of the Biophysical Society of Japan)

Soda, Kunitsugu, Shimbo, Yudai, Seki, Yasutaka, Taiji, Makoto

Journal:

Seibutsu Butsuri

Year:

2009

Language:

english

File:

PDF, 204 KB

english, 2009

6

2SE0920 Structural-Fluctuation Dynamics and High-Energy Structure of Protein(2SE High-Energy Paradigm of Protein Structures,The 48th Annual Meeting of the Biophysical Society of Japan)

Soda, Kunitsugu, Shimbo, Yudai, Seki, Yasutaka, Taiji, Makoto

Journal:

Seibutsu Butsuri

Year:

2010

Language:

english

File:

PDF, 232 KB

english, 2010

7

1P-069 Structural Analysis of a Natively Unfolded Protein by Combining Molecular Modeling and Solution X-ray Scattering(Protein:Measurement & Analysis, The 47th Annual Meeting of the Biophysical Society of Japan)

Seki, Yasutaka, Aizawa, Tomoyasu, Shimbo, Yudai, Soda, Kunitsugu

Journal:

Seibutsu Butsuri

Year:

2009

Language:

english

File:

PDF, 237 KB

english, 2009

8

2P144 1E1355 Physical Properties of Protein Hydration : II. Dynamics of Hydration Water(The 48th Annual Meeting of the Biophysical Society of Japan)

Soda, Kunitsugu, Shimbo, Yudai, Seki, Yasutaka, Taiji, Makoto

Journal:

Seibutsu Butsuri

Year:

2010

Language:

english

File:

PDF, 230 KB

english, 2010

9

2B1648 Physical Properties of Protein Hydaration. III. : Dynamic Characteristics of Internal Hydration Water for Lysozyme(Water & Hydration & Electrolyte,The 48th Annual Meeting of the Biophysical Society of Japan)

Soda, Kunitsugu, Shimbo, Yudai, Seki, Yasutaka, Taiji, Makoto

Journal:

Seibutsu Butsuri

Year:

2011

Language:

english

File:

PDF, 219 KB

english, 2011

10

1P-085 Hydration of Small Nonpolar Molecules Analyzed by Molecular Dynamics Simulation(The 46th Annual Meeting of the Biophysical Society of Japan)

Shimbo, Yudai, Fujii, Jumpei, Matsumoto, Hiroki, Seki, Yasutaka, Soda, Kunitsugu

Journal:

Seibutsu Butsuri

Year:

2008

Language:

english

File:

PDF, 278 KB

english, 2008

11

3P061 The Structure Analysis of the Unfolded Protein by the Solution X-ray Scattering and the Residual Dipolar Couplings of NMR.(Protein: Property,The 48th Annual Meeting of the Biophysical Society of Japan)

Seki, Yasutaka, Shimbo, Yudai, Nonaka, Takamasa, Soda, Kunitsugu

Journal:

Seibutsu Butsuri

Year:

2010

Language:

english

File:

PDF, 235 KB

english, 2010

12

2P402 Structural and Thermodynamic Analysis of Hydrophobic Hydration by Molecular Dynamics Simulation(46. Water and bio-molecule,Poster Session,Abstract,Meeting Program of EABS & BSJ 2006)

Shimbo, Yudai, Seki, Yasutaka, Matsumoto, Hiroki, Soda, Kunitsugu

Journal:

Seibutsu Butsuri

Year:

2006

Language:

english

File:

PDF, 154 KB

english, 2006

13

1P-086 Contribution of Hydration Water to Partial Molecular Compressibility of Small Molecules(The 46th Annual Meeting of the Biophysical Society of Japan)

Fujii, Jumpei, Shimbo, Yudai, Seki, Yasutaka, Soda, Kunitsugu

Journal:

Seibutsu Butsuri

Year:

2008

Language:

english

File:

PDF, 268 KB

english, 2008

14

3P133 Analysis of Hydration Heat Capacity of Nonpolar Molecules by Molecular Dynamics Simulation(Cell biological problems-adhesion, mobility, cytoskeleton, signaling, and membrane. Water and hydration, Electrolytes,Oral Presentations)

Shimbo, Yudai, Matsumoto, Hiroki, Seki, Yasutaka, Soda, Kunitsugu

Journal:

Seibutsu Butsuri

Year:

2007

File:

PDF, 218 KB

2007

15

2P145 Physical Properties of Protein Hydration : I. Statistics of Hydration Sites(The 48th Annual Meeting of the Biophysical Society of Japan)

Shimbo, Yudai, Seki, Yasutaka, Taiji, Makoto, Soda, Kunitsugu

Journal:

Seibutsu Butsuri

Year:

2010

Language:

english

File:

PDF, 437 KB

english, 2010

16

1PT009 Physical Properties of Protein Hydaration. : IV. Quantitative Analysis of Hydration-Site Dynamics(The 50th Annual Meeting of the Biophysical Society of Japan)

Soda, Kunitsugu, Shimbo, Yudai, Seki, Yasutaka, Taiji, Makoto

Journal:

Seibutsu Butsuri

Year:

2012

Language:

english

File:

PDF, 393 KB

english, 2012