Suenaga A - Search Results

1

Molecular dynamics, free energy, and SPR analyses of the interactions between the SH2 domain of Grb2 and ErbB phosphotyrosyl peptides.

Suenaga A, Hatakeyama M, Ichikawa M, Yu X, Futatsugi N, Narumi T, Fukui K, Terada T, Taiji M, Shirouzu M, Yokoyama S, Konagaya A. Suenaga A, et al. Biochemistry. 2003 May 13;42(18):5195-200. doi: 10.1021/bi034113h. Biochemistry. 2003. PMID: 12731860

2

Tyr-317 phosphorylation increases Shc structural rigidity and reduces coupling of domain motions remote from the phosphorylation site as revealed by molecular dynamics simulations.

Suenaga A, Kiyatkin AB, Hatakeyama M, Futatsugi N, Okimoto N, Hirano Y, Narumi T, Kawai A, Susukita R, Koishi T, Furusawa H, Yasuoka K, Takada N, Ohno Y, Taiji M, Ebisuzaki T, Hoek JB, Konagaya A, Kholodenko BN. Suenaga A, et al. J Biol Chem. 2004 Feb 6;279(6):4657-62. doi: 10.1074/jbc.M310598200. Epub 2003 Nov 12. J Biol Chem. 2004. PMID: 14613932 Free article.

3

Novel mechanism of interaction of p85 subunit of phosphatidylinositol 3-kinase and ErbB3 receptor-derived phosphotyrosyl peptides.

Suenaga A, Takada N, Hatakeyama M, Ichikawa M, Yu X, Tomii K, Okimoto N, Futatsugi N, Narumi T, Shirouzu M, Yokoyama S, Konagaya A, Taiji M. Suenaga A, et al. J Biol Chem. 2005 Jan 14;280(2):1321-6. doi: 10.1074/jbc.M410436200. Epub 2004 Nov 1. J Biol Chem. 2005. PMID: 15520002 Free article.

4

Molecular dynamics simulations reveal that Tyr-317 phosphorylation reduces Shc binding affinity for phosphotyrosyl residues of epidermal growth factor receptor.

Suenaga A, Hatakeyama M, Kiyatkin AB, Radhakrishnan R, Taiji M, Kholodenko BN. Suenaga A, et al. Biophys J. 2009 Mar 18;96(6):2278-88. doi: 10.1016/j.bpj.2008.11.018. Biophys J. 2009. PMID: 19289054 Free PMC article.

5

Increased rigidity of domain structures enhances the stability of a mutant enzyme created by directed evolution.

Hoseki J, Okamoto A, Takada N, Suenaga A, Futatsugi N, Konagaya A, Taiji M, Yano T, Kuramitsu S, Kagamiyama H. Hoseki J, et al. Among authors: suenaga a. Biochemistry. 2003 Dec 16;42(49):14469-75. doi: 10.1021/bi034776z. Biochemistry. 2003. PMID: 14661958

6

Structure and dynamics of RNA polymerase II elongation complex.

Suenaga A, Okimoto N, Futatsugi N, Hirano Y, Narumi T, Ohno Y, Yanai R, Hirokawa T, Ebisuzaki T, Konagaya A, Taiji M. Suenaga A, et al. Biochem Biophys Res Commun. 2006 Apr 28;343(1):90-8. doi: 10.1016/j.bbrc.2006.02.124. Epub 2006 Mar 2. Biochem Biophys Res Commun. 2006. PMID: 16529717

7

Folding dynamics of 10-residue beta-hairpin peptide chignolin.

Suenaga A, Narumi T, Futatsugi N, Yanai R, Ohno Y, Okimoto N, Taiji M. Suenaga A, et al. Chem Asian J. 2007 May 4;2(5):591-8. doi: 10.1002/asia.200600385. Chem Asian J. 2007. PMID: 17465405

8

High-performance drug discovery: computational screening by combining docking and molecular dynamics simulations.

Okimoto N, Futatsugi N, Fuji H, Suenaga A, Morimoto G, Yanai R, Ohno Y, Narumi T, Taiji M. Okimoto N, et al. Among authors: suenaga a. PLoS Comput Biol. 2009 Oct;5(10):e1000528. doi: 10.1371/journal.pcbi.1000528. Epub 2009 Oct 9. PLoS Comput Biol. 2009. PMID: 19816553 Free PMC article.

9

An efficient computational method for calculating ligand binding affinities.

Suenaga A, Okimoto N, Hirano Y, Fukui K. Suenaga A, et al. PLoS One. 2012;7(8):e42846. doi: 10.1371/journal.pone.0042846. Epub 2012 Aug 20. PLoS One. 2012. PMID: 22916168 Free PMC article.

10

Crystal structure of the rac activator, Asef, reveals its autoinhibitory mechanism.

Murayama K, Shirouzu M, Kawasaki Y, Kato-Murayama M, Hanawa-Suetsugu K, Sakamoto A, Katsura Y, Suenaga A, Toyama M, Terada T, Taiji M, Akiyama T, Yokoyama S. Murayama K, et al. Among authors: suenaga a. J Biol Chem. 2007 Feb 16;282(7):4238-4242. doi: 10.1074/jbc.C600234200. Epub 2006 Dec 26. J Biol Chem. 2007. PMID: 17190834 Free article.

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