Mayuko Takeda-Shitaka

发表

Community‐wide evaluation of methods for predicting the effect of mutations on protein–protein interactions

Julie C. Mitchell, Jeffrey J. Gray, Z. Weng, 2013, Proteins.

CAB-Align: A Flexible Protein Structure Alignment Method Based on the Residue-Residue Contact Area

Genki Terashi, Mayuko Takeda-Shitaka, 2015, PloS one.

HUMAN FAMSD-BASE: high quality protein structure model database for the human genome using the FAMSD homology modeling method.

Genki Terashi, Mayuko Takeda-Shitaka, M. Iwadate, 2010, Chemical & pharmaceutical bulletin.

New protein structure model evaluation methods that include a side-chain consensus score for the protein modeling.

Genki Terashi, Mayuko Takeda-Shitaka, H. Umeyama, 2010, Chemical & pharmaceutical bulletin.

FAMSD: A powerful protein modeling platform that combines alignment methods, homology modeling, 3D structure quality estimation and molecular dynamics.

Genki Terashi, Mitsuo Iwadate, Hideaki Umeyama, 2009, Chemical & pharmaceutical bulletin.

Dynamic character of human growth hormone and its receptor: normal mode analysis.

Hideaki Umeyama, Mayuko Takeda-Shitaka, Kenshu Kamiya, 2003, Chemical & pharmaceutical bulletin.

Dynamic influence of the two membrane-proximal immunoglobulin-like domains upon the peptide-binding platform domain in class I and class II major histocompatibility complexes: normal mode analysis.

Mayuko Takeda-Shitaka, H. Umeyama, K. Kamiya, 2009, Chemical & pharmaceutical bulletin.

Evaluation of homology modeling of the severe acute respiratory syndrome (SARS) coronavirus main protease for structure based drug design.

Mayuko Takeda-Shitaka, M. Iwadate, H. Umeyama, 2004, Chemical & pharmaceutical bulletin.

Topology of AspT, the Aspartate:Alanine Antiporter of Tetragenococcus halophilus, Determined by Site-Directed Fluorescence Labeling

T. Uchida, P. Maloney, Xicheng Wang, 2007, Journal of bacteriology.

Molecular characterization of ADAMTS13 gene mutations in Japanese patients with Upshaw-Schulman syndrome.

E. Ito, T. Miyata, K. Kokame, 2003, Blood.

Method for predicting homology modeling accuracy from amino acid sequence alignment: the power function.

Genki Terashi, Mayuko Takeda-Shitaka, M. Iwadate, 2010, Chemical & pharmaceutical bulletin.

Driving forces of biomolecular organisation specific to nanometer scale: protein orientation on the surface, controlled by pH level

Y. Shirshov, B. Snopok, P. Boltovets, 2001 .

patients with Upshaw-Schulman syndrome Molecular characterization of ADAMTS13 gene mutations in Japanese

E. Ito, K. Kokame, T. Nakagaki, 2013 .

Remarkably different structures and reaction mechanisms of ketoreductases for the opposite stereochemical control in the biosynthesis of BIQ antibiotics.

Y. Ebizuka, N. Kawano, Mayuko Takeda-Shitaka, 2004, Bioorganic & medicinal chemistry.

Comprehensive analysis of the Co-structures of dipeptidyl peptidase IV and its inhibitor

Genki Terashi, Mayuko Takeda-Shitaka, K. Kanou, 2016, BMC Structural Biology.

Dynamic flexibility of a peptide-binding groove of human HLA-DR1 class II MHC molecules: normal mode analysis of the antigen peptide-class II MHC complex.

Mayuko Takeda-Shitaka, H. Umeyama, K. Kamiya, 2003, Chemical & pharmaceutical bulletin.

Identification of amino acid residues of Salmonella SlyA that are critical for transcriptional regulation.

T. Miki, N. Okada, H. Danbara, 2007, Microbiology.

Geometrical Conversion of the EGFR Extracellular Domain by Adiabatic Mapping Combining Normal Mode Analysis of the Elastic Network Model and Energy Optimization.

Yasuomi Kiyota, Genki Terashi, Mayuko Takeda-Shitaka, 2019, Chemical & pharmaceutical bulletin.

Prediction of protein assemblies, the next frontier: The CASP14‐CAPRI experiment

Jeffrey J. Gray, Panagiotis I. Koukos, Johnathan D. Guest, 2021, Proteins.

Community-wide assessment of protein-interface modeling suggests improvements to design methodology.

Kengo Kinoshita, Haruki Nakamura, Genki Terashi, 2011, Journal of molecular biology.

Dynamic characteristics of a peptide-binding groove of human HLA-A2 class I MHC molecules: normal mode analysis of the antigen peptide-class I MHC complex.

Mayuko Takeda-Shitaka, H. Umeyama, K. Kamiya, 2002, Chemical & pharmaceutical bulletin.

Dynamic interaction among the platform domain and two membrane-proximal immunoglobulin-like domains of class I major histocompatibility complex: normal mode analysis.

Hideaki Umeyama, Mayuko Takeda-Shitaka, Kenshu Kamiya, 2008, Chemical & pharmaceutical bulletin.

Bioinformatics based Ligand-Docking and in-silico screening.

Genki Terashi, Mitsuo Iwadate, Daisuke Takaya, 2008, Chemical & pharmaceutical bulletin.

Residue–residue interactions regulating the Ca2+-induced EF-hand conformation changes in calmodulin

Hiromitsu Shimoyama, Mayuko Takeda-Shitaka, 2017, Journal of biochemistry.

Three Dimensional Structure of Activated Protein C

T. Miyata, Mayuko Takeda-Shitaka, H. Umeyama, 1999 .

Model Quality Assessment Using a Statistical Program that Adopts a Side Chain Environment Viewpoint

Genki Terashi, Mayuko Takeda-Shitaka, Kazuhiko Kanou, 2010 .

Fams‐ace: A combined method to select the best model after remodeling all server models

Genki Terashi, Mayuko Takeda-Shitaka, Kazuhiko Kanou, 2007, Proteins.

Protein structure prediction in structure based drug design.

Daisuke Takaya, Hideaki Umeyama, Mayuko Takeda-Shitaka, 2004, Current medicinal chemistry.

Interaction between the antigen and antibody is controlled by the constant domains: Normal mode dynamics of the HEL–HyHEL‐10 complex

Mayuko Takeda-Shitaka, H. Umeyama, K. Kamiya, 2003, Protein science : a publication of the Protein Society.

Community-wide assessment of GPCR structure modelling and ligand docking: GPCR Dock 2008

Charles L. Brooks, Adrian W. R. Serohijos, John Moult, 2009, Nature Reviews Drug Discovery.

Elucidation of the cause for reduced activity of abnormal human plasmin containing an Ala55‐Thr mutation: importance of highly conserved Ala55 in serine proteases

Mayuko Takeda-Shitaka, H. Umeyama, Mayuko Takeda-Shitaka, 1998, FEBS letters.

Molecular recognition study on the binding of calcium to calbindin D9k based on 3D reference interaction site model theory.

Yasuomi Kiyota, Mayuko Takeda-Shitaka, 2014, The journal of physical chemistry. B.

Impact of AlphaFold on structure prediction of protein complexes: The CASP15‐CAPRI experiment

Johnathan D. Guest, Adam K. Sieradzan, Charles W Christoffer, 2023, Proteins.