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Items: 18

1.

Computational Studies on Water-Catalyzed Mechanisms for Stereoinversion of Glutarimide Intermediates Formed from Glutamic Acid Residues in Aqueous Phase.

Nakayoshi T, Fukuyoshi S, Kato K, Kurimoto E, Oda A.

Int J Mol Sci. 2019 May 15;20(10). pii: E2410. doi: 10.3390/ijms20102410.

2.

Draft Genome Sequence of Trebouxiophyceae sp. Strain KSI-1, Isolated from an Island Hot Spring.

Takahashi H, Tanaka S, Hayashi S, Miyaki S, Takahashi A, Onai S, Fukuyoshi S, Miyasaka H.

Microbiol Resour Announc. 2018 Oct 25;7(16). pii: e01185-18. doi: 10.1128/MRA.01185-18. eCollection 2018 Oct.

3.

Draft Genome Sequence of Saccharomyces cerevisiae Strain Hm-1, Isolated from Cotton Rosemallow.

Takahashi H, Sakagawa E, Sakakibara I, Machida C, Miyaki S, Takahashi A, Onai S, Fukuyoshi S, Ohta A, Satou K, Kanamasa S.

Microbiol Resour Announc. 2018 Oct 4;7(13). pii: e01184-18. doi: 10.1128/MRA.01184-18. eCollection 2018 Oct.

4.

Triazine-Based Cationic Leaving Group: Synergistic Driving Forces for Rapid Formation of Carbocation Species.

Fujita H, Kakuyama S, Fukuyoshi S, Hayakawa N, Oda A, Kunishima M.

J Org Chem. 2018 Apr 20;83(8):4568-4580. doi: 10.1021/acs.joc.8b00331. Epub 2018 Apr 9.

PMID:
29616811
5.

Computational studies on the water-catalyzed stereoinversion mechanism of glutamic acid residues in peptides and proteins.

Nakayoshi T, Kato K, Fukuyoshi S, Takahashi O, Kurimoto E, Oda A.

Chirality. 2018 May;30(5):527-535. doi: 10.1002/chir.22841. Epub 2018 Mar 12.

PMID:
29528512
6.

Validation of molecular force field parameters for peptides including isomerized amino acids.

Oda A, Nakayoshi T, Fukuyoshi S, Kurimoto E, Yamaotsu N, Hirono S, Takahashi O.

Chirality. 2018 Apr;30(4):332-341. doi: 10.1002/chir.22821. Epub 2018 Feb 2.

PMID:
29393985
7.

Influences of conformations of peptides on stereoinversions and/or isomerizations of aspartic acid residues.

Oda A, Nakayoshi T, Fukuyoshi S, Kurimoto E, Takahashi O.

Biochim Biophys Acta Proteins Proteom. 2018 Jul;1866(7):783-788. doi: 10.1016/j.bbapap.2018.01.006. Epub 2018 Jan 11.

PMID:
29331333
8.

Comparison of the activation energy barrier for succinimide formation from α- and β-aspartic acid residues obtained from density functional theory calculations.

Nakayoshi T, Kato K, Fukuyoshi S, Takahashi O, Kurimoto E, Oda A.

Biochim Biophys Acta Proteins Proteom. 2018 Jul;1866(7):759-766. doi: 10.1016/j.bbapap.2017.12.011. Epub 2018 Jan 3.

PMID:
29305913
9.

Corymbulosins I-W, Cytotoxic Clerodane Diterpenes from the Bark of Laetia corymbulosa.

Aimaiti S, Suzuki A, Saito Y, Fukuyoshi S, Goto M, Miyake K, Newman DJ, O'Keefe BR, Lee KH, Nakagawa-Goto K.

J Org Chem. 2018 Jan 19;83(2):951-963. doi: 10.1021/acs.joc.7b02951. Epub 2018 Jan 10.

10.

Validation of Molecular Dynamics Simulations for Prediction of Three-Dimensional Structures of Small Proteins.

Kato K, Nakayoshi T, Fukuyoshi S, Kurimoto E, Oda A.

Molecules. 2017 Oct 12;22(10). pii: E1716. doi: 10.3390/molecules22101716.

11.

Investigation of substrate recognition for cytochrome P450 1A2 mediated by water molecules using docking and molecular dynamics simulations.

Watanabe Y, Fukuyoshi S, Kato K, Hiratsuka M, Yamaotsu N, Hirono S, Gouda H, Oda A.

J Mol Graph Model. 2017 Jun;74:326-336. doi: 10.1016/j.jmgm.2017.04.006. Epub 2017 Apr 13.

PMID:
28475969
12.

Corymbulosins D-H, 2-Hydroxy- and 2-Oxo-clerodane Diterpenes from the Bark of Laetia corymbulosa.

Suzuki A, Saito Y, Fukuyoshi S, Goto M, Miyake K, Newman DJ, O'Keefe BR, Lee KH, Nakagawa-Goto K.

J Nat Prod. 2017 Apr 28;80(4):1065-1072. doi: 10.1021/acs.jnatprod.6b01151. Epub 2017 Mar 14.

13.

A Novel Clerodane Diterpene from Vitex cofassus.

Rasyid FA, Fukuyoshi S, Ando H, Miyake K, Atsumi T, Fujie T, Saito Y, Goto M, Shinya T, Mikage M, Sasaki Y, Nakagawa-Goto K.

Chem Pharm Bull (Tokyo). 2017;65(1):116-120. doi: 10.1248/cpb.c16-00775.

14.

Prediction of three-dimensional structures and structural flexibilities of wild-type and mutant cytochrome P450 1A2 using molecular dynamics simulations.

Watanabe Y, Fukuyoshi S, Hiratsuka M, Yamaotsu N, Hirono S, Takahashi O, Oda A.

J Mol Graph Model. 2016 Jul;68:48-56. doi: 10.1016/j.jmgm.2016.06.006. Epub 2016 Jun 16.

PMID:
27371932
15.

Molecular Dynamics Simulations to Investigate the Influences of Amino Acid Mutations on Protein Three-Dimensional Structures of Cytochrome P450 2D6.1, 2, 10, 14A, 51, and 62.

Fukuyoshi S, Kometani M, Watanabe Y, Hiratsuka M, Yamaotsu N, Hirono S, Manabe N, Takahashi O, Oda A.

PLoS One. 2016 Apr 5;11(4):e0152946. doi: 10.1371/journal.pone.0152946. eCollection 2016.

16.

Predicting three-dimensional conformations of peptides constructed of only glycine, alanine, aspartic acid, and valine.

Oda A, Fukuyoshi S.

Orig Life Evol Biosph. 2015 Jun;45(1-2):183-93. doi: 10.1007/s11084-015-9418-5. Epub 2015 Mar 21.

PMID:
25794830
17.
18.

Predicting the structures of complexes between phosphoinositide 3-kinase (PI3K) and romidepsin-related compounds for the drug design of PI3K/histone deacetylase dual inhibitors using computational docking and the ligand-based drug design approach.

Oda A, Saijo K, Ishioka C, Narita K, Katoh T, Watanabe Y, Fukuyoshi S, Takahashi O.

J Mol Graph Model. 2014 Nov;54:46-53. doi: 10.1016/j.jmgm.2014.08.007. Epub 2014 Sep 8.

PMID:
25254927

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