論文・書籍
2026
14-3-3ζ interacts with DNA-binding domain of FOXO3a and competitively dissociates DNA by dual-motif tethering. 2025
misteINK: a protein nanocage-based ink with reversible, stimuli-responsive color shifts.
IMPDH and GTP Metabolism in Cancer: Mechanisms, Regulation, and Translational Scope.
Structural basis of transglucosylation in dextran dextrinase, a homolog of anomer-inverting GH15 glucoside hydrolases.
Structural basis of transfer RNA processing by bacterial minimal RNase P.
Ancestral sequence reconstruction as a tool for structural analysis of modular polyketide synthases.
De novo design of ATPase based on a blueprint optimized for harboring the P-loop motif.
Advances in macromolecular crystallography at the Photon Factory: automation from crystallization to structural determination.
A dynamic structural unit of phase-separated heterochromatin protein 1α as revealed by integrative structural analyses.
Discovery of a distinct type of methylenetetrahydrofolate reductase family that couples with tetrahydrofolate-dependent demethylases.
Structural characterization of pyruvic oxime dioxygenase, a key enzyme in
heterotrophic nitrification.
Parasitoid wasp venoms degrade Drosophila imaginal discs for successful parasitism.
PI5P4K inhibitors: promising opportunities and challenges.
Metabolic modification of Sphingobium lignivorans SYK-6 for lignin valorization through the discovery of an unusual transcriptional repressor of lignin-derived dimer catabolism. 2024
Disulfide-mediated oligomerization of mutant Cu/Zn-superoxide dismutase associated with canine degenerative myelopathy.
CaMKII-dependent non-canonical RIG-I pathway promotes influenza virus propagation in the acute-phase of infection.
Na+-V-ATPase inhibitor curbs VRE growth and unveils Na+ pathway structure.
Improved higher resolution cryo-EM structures reveal the binding modes of hERG channel inhibitors.
GoToCloud optimization of cloud computing environment for accelerating cryo-EM structure-based drug design.
Structural characterization of pyruvic oxime dioxygenase, a key enzyme of heterotrophic nitrification.
De novo design of ATPase based on the blueprint optimized for harboring the P-loop motif.
The structural basis of pyridoxal-5′-phosphate-dependent β-NAD-alkylating enzymes.
Structural basis of sugar recognition by SCFFBS2 ubiquitin ligase involved in NGLY1 deficiency.
Engineering of ATP synthase for enhancement of proton-to-ATP ratio.
A high dose KRP203 induces cytoplasmic vacuoles associated with altered phosphoinositide segregation and endosome expansion.
Discovery of a new type of methylenetetrahydrofolate reductase family that couples with tetrahydrofolate-dependent demethylases.
Cryo-EM structure of P-glycoprotein bound to triple elacridar inhibitor molecules.
Fusion then fission: splitting and reassembly of an artificial fusion-protein nanocage.
Cyclic Sesquiterpene–Flavanone [4+2] Hybrids, Syzygioblanes A–C, Found in an Indonesian Traditional Medicine, “Jampu Salo” (Syzygium oblanceolatum).
Understanding the effects of ethanol on the liposome bilayer structure using microfluidic-based time-resolved small-angle X-ray scattering and molecular dynamics simulations.
Structure of full-length ERGIC-53 in complex with MCFD2 for cargo transport.
Heme-substituted protein assembly bridged by synthetic porphyrin: achieving controlled configuration while maintaining rotational freedom.
Stabilization of adalimumab Fab through the introduction of disulfide bonds between the variable and constant domains.
SAXS/WAXS data of conformationally flexible ribose binding protein. 2023
Function and Structure of a Terpene Synthase Encoded in a Giant Virus Genome.
Multimodal action of KRP203 on phosphoinositide kinases in vitro and in cells.
Stromal Interaction Molecule 1 Maintains β-Cell Identity and Function in Female Mice Through Preservation of G-Protein–Coupled Estrogen Receptor 1 Signaling.
Identification and characterization of endo-α-, exo-α-, and exo-β-D-arabinofuranosidases degrading lipoarabinomannan and arabinogalactan of mycobacteria.
Crystal Structure Analysis of SH2 Domains in Complex with Phosphotyrosine Peptides.
Structural bases for the Charcot-Marie-Tooth disease induced by single amino acid substitutions of myelin protein zero.
The two-step cargo recognition mechanism of heterotrimeric kinesin.
X-ray and Electron Diffraction Observations of Steric Zipper Interactions in Metal-Induced Peptide Cross-β Nanostructures.
Anti-nanodisc antibodies specifically capture nanodiscs and facilitate molecular interaction kinetics studies for membrane protein.
Design of allosteric sites into rotary motor V1-ATPase by restoring lost function of pseudo-active sites.
Experimental phasing opportunities for macromolecular crystallography at very long wavelengths.
X-ray and Electron Diffraction Observations of Steric Zipper Interactions in Metal-Induced Peptide Cross-β Nanostructures.
X-Ray Conformation and Structure–Activity Relationships of MA026, a Reversible Tight Junction Opener.
Targeting transglutaminase 2 mediated exostosin glycosyltransferase 1 signaling in liver cancer stem cells with acyclic retinoid.
Effect of Alkali Metal Cations on the Unilamellar Vesicle of a Squalene Bearing 18-Crown-6.
Functional molecular evolution of a GTP sensing kinase: PI5P4Kβ.
Structural basis underlying the synergism of NADase and SLO during group A Streptococcus infection.
Uphill energy transfer mechanism for photosynthesis in an Antarctic alga.
Reversible Assembly of an Artificial Protein Nanocage Using Alkaline Earth Metal Ions.
BioSAXS を活用した生体高分子の溶液構造状態推定. (only Japanese)
MOLASS: Software for automatic processing of matrix data obtained from small-angle X-ray scattering and UV–visible spectroscopy combined with size-exclusion chromatography. 2022
Structural basis for activation of DNMT1.
Structural bases for aspartate recognition and polymerization efficiency of cyanobacterial cyanophycin synthetase.
Core fucose-specific Pholiota squarrosa lectin (PhoSL) as a potent broad-spectrum inhibitor of SARS-CoV-2 infection.
Ligand Recognition by the Lipid Transfer Domain of Human OSBP Is Important for Enterovirus Replication.
Development of a direct reading system for an RFID-tagged Uni-puck in liquid nitrogen.
Molecular Tension Probe for In Vitro Bioassays.
Serial crystallography with multi-stage merging of thousands of images.
A unique peptide-based pharmacophore identifies an inhibitory compound against the A-subunit of Shiga toxin.
Chemical and Chemo-Enzymatic Syntheses of Glycans Containing Ribitol Phosphate Scaffolding of Matriglycan.
The GTP responsiveness of PI5P4Kβ evolved from a compromised trade-off between activity and specificity.
Discovery of non-squalene triterpenes.
Exploration and structure-based engineering of alkenal double bond reductases catalyzing the Cαsingle bondCβ double bond reduction of coniferaldehyde.
Structural basis of the strict specificity of a bacterial GH31 α-1,3-glucosidase for nigerooligosaccharides.
Ca2+-induced structural changes and intramolecular interactions in N-terminal region of diacylglycerol kinase alpha.
K-edge anomalous SAXS for protein solution structure modeling.
A crystal-processing machine using a deep-ultraviolet laser: application to long-wavelength native SAD experiments.
Molecular action of larvicidal flavonoids on ecdysteroidogenic glutathione S-transferase Noppera-bo in Aedes aegypti.
高エネルギー加速器研究機構における共同利用型クライオ電子顕微鏡の現状と課題. 2021
DNA polymerase D temporarily connects primase to the CMG-like helicase before interacting with proliferating cell nuclear antigen.
Cryo-EM structure of the nucleosome core particle containing Giardia lamblia histones.
Cryo-EM Structure of K+-Bound hERG Channel Complexed with the Blocker Astemizole.
Automated crystal shaping to facilitate native SAD phasing.
Non-conventional octameric structure of C-phycocyanin.
C-Glycoside metabolism in the gut and in nature: Identification, characterization, structural analyses and distribution of C-C bond-cleaving enzymes.
FAD-dependent C-glycoside-metabolizing Enzymes in Microorganisms: Screening, Characterization and Crystal Structure Analysis.
Photon Factoryのタンパク質X線結晶構造解析ビームラインにおける全自動測定とリモート実験.
Non-steroidal inhibitors of Drosophila melanogaster steroidogenic glutathione S-transferase Noppera-bo.
Characterization of a novel type of carbonic anhydrase that acts without metal cofactors.
Minimal protein-only RNase P structure reveals insights into tRNA precursor recognition and catalysis.
Structural insight into host plasma membrane association and assembly of HIV1 matrix protein.
2.85 and 2.99 Å resolution structures of 110 kDa nitrite reductase determined by 200 kV cryogenic electron microscopy.
Divergent Mechanisms Activating RAS and Small GTPases Through Post-translational Modification.
3CL Protease Inhibitors with an Electrophilic Arylketone Moiety as Anti-SARS-CoV-2 Agents.
An antibiotic-resistance conferring mutation in a neisserial porin: Structure, ion flux, and ampicillin binding.
Structures and General Transport Mechanisms by the Major Facilitator Superfamily (MFS).
Identification of a peptide motif that potently inhibits two functionally distinct subunits of Shiga toxin.
Structural and functional analyses of the tridomain-nonribosomal peptide synthetase FmoA3 for 4-methyloxazoline ring formation.
Crystal structure of the full‐length LysR‐type transcription regulator CbnR in complex with promoter DNA.
A fully automated crystallization apparatus for small protein quantities.
Cryo-EM Structure of K +-Bound hERG Channel Complexed with the Blocker Astemizole.
放射光X線を用いた時間分解結晶構造解析法 2020
Impact and relevance of alchol dehydrogenase enantioselectivities on biotechnogokical applications.
An integrated approach to unravel a crucial structural property required for the function of the insect steroidogenic Halloween protein Noppera-bo.
Crystal structure of GCN5 PCAF N-terminal domain reveals atypical ubiquitin ligase structure.
クライオ電子顕微鏡単粒子解析への深層学習 AI 技術の応用の現状と展望.
De Novo Design of Allosteric Control into Rotary Motor V1-ATPase by Restoring Lost Function.
Size matters: optimal mask diameter and box size for single-particle cryogenic electron microscopy.
A crystal-mounting platform has been developed for native SAD phasing. This platform includes a newly designed solution-free tool and an automatic freezing–extracting robot for use at synchrotron facilities.
The measles virus V protein binding site to STAT2 overlaps with that of IRF9.
200 kV単粒子クライオ電子顕微鏡による小さいタンパク質の三次元構造再構築におけるボックスサイズと粒子マスク直径の決定方法.
Impact and relevance of alchol dehydrogenase enantioselectivities on biotechnogokical applications.
Crystallographic and cryogenic electron microscopic structures and enzymatic characterization of sulfur oxygenase reductase from Sulfurisphaera tokodaii.
Structural analysis reveals TLR7 dynamics underlying antagonism.
FAM3B/PANDER-Like Carbohydrate-Binding Domain in a Glycosyltransferase, POMGNT1.
MFS型多剤排出トランスポーターMdfAの薬剤輸送に伴う構造変化のメカニズム.
Short-Distance Intermolecular Correlations of Mono- and Disaccharides in Condensed Solutions: Bulky Character of Trehalose.
ゲル濾過クロマトグラフィーと組み合わせたタンパク質X線溶液散乱解析技術.
Crystal structures of fukutin-related protein (FKRP), a ribitol-phosphate transferase related to muscular dystrophy.
How Does a Microbial Rhodopsin RxR Realize Its Exceptionally High Thermostability with the Proton-Pumping Function Being Retained?
Snapshots of PLP-substrate and PLP-product external aldimines as intermediates in two types of cysteine desulfurase enzymes.
Optimal Mutant Model of Human S100A3 Protein Citrullinated at Arg51 by Peptidylarginine Deiminase Type III and Its Solution Structural Properties.
X線結晶構造解析-技術革新- 山田悠介，千田俊哉
実験医学増刊 イメージング時代の構造生命科学 2020 Vol.38 No.5
長波長X線を利用したタンパク質結晶構造解析 2019
Serial Femtosecond X-Ray Diffraction of HIV-1 Gag MA-IP6 Microcrystals at Ambient Temperature.
Reversible control of enantioselectivity by the length of ketone substituent in biocatalytic reduction.
Structural basis for highly (S)-enantioselective reductase towards aliphatic ketones with only one carbon difference between side chain.
SPHIRE-crYOLO is a fast and accurate fully automated particle picker for cryo-EM.
Effects of Loading Amount of Plasticizers on Improved Crystallization of Poly (L-lactic acid).
Improvement of Production and Isolation of Human Neuraminidase-1 in Cellulo Crystals.
Structural Evolution in Isothermal Crystallization Process of Poly(L-lactic acid) Enhanced by Silk Fibroin Nano-Disc.
One-shot preparation of topologically chimeric nanofibers via a gradient supramolecular copolymerization.
Structure of tRNA methyltransferase complex of Trm7 and Trm734 reveals a novel binding interface for tRNA recognition.
Glycoscience: Basic Science to Applications (ed. by N.Taniguchi et al.).
Anti-Tumor Potential of IMP Dehydrogenase Inhibitors: A Century-Long Story.
Topological Impact on the Kinetic Stability of Supramolecular Polymers.
レクチンの複数の糖結合部位の親和性解析－セレン糖鎖とＸ線結晶構造解析
Effects of drying temperature in solution coating process on microphase-separated structures in coated layers of pressure-sensitive adhesive composed of di- and triblock copolymer blends as revealed by small-angle X-ray scattering.
Construction of a Quadrangular Tetramer and a Cage-Like Hexamer from Three-Helix Bundle-Linked Fusion Proteins.
Structure of Ultrafine Bubbles and Their Effects on Protein and Lipid Membrane Structures Studied by Small- and Wide-Angle X-ray Scattering.
High-resolution experimental and computational electrophysiology reveals weak β-lactam binding events in the porin PorB.
Long-wavelength native-SAD phasing: opportunities and challenges.
Hyperbolic Pressure-Temperature Phase Diagram of the Zinc-Finger Protein apoKti11 Detected by NMR Spectroscopy.
Effects of a special diluent as an agent of improving the crystallizability of poly(L-lactic acid).
Purification and functional characterization of tomato mosaic virus130K protein expressed in silkworm pupae using a baculovirus vector.
Software for serial data analysis measured by SEC-SAXS/UV-Vis spectroscopy.
New high-brilliance small angle x-ray scattering beamline, BL-15A2 at the photon factory.
Further developments of the tender x-ray diffractometer at BL-15A2 of the photon factory.
BL-10C, the small-angle x-ray scattering beamline at the photon factory.
RFID tag system for sample tracking at structural biology beamlines.
High spatial resolution small angle X-ray scattering experiments using SOPHIAS detector. 2018
Restoration of Myoglobin Native Fold from Its Initial State of Amyloid Formation by Trehalose.
Application of the SOPHIAS Detector to Synchrotron Radiation X-Ray Experiments.
Structural Diversity Problems and the Solving Method for Antibody Light Chains.
Outward open conformation of a Major Facilitator Superfamily multidrug/H+ antiporter provides insights into switching mechanism.
Structural and Computational Bases for Dramatic Skeletal Rearrangement in Anditomin Biosynthesis.
Functional activity of the H3.3 histone chaperone complex HIRA requires trimerization of the HIRA subunit.
Structure of MHC class I-like MILL2 reveals heparan-sulfate binding and interdomain flexibility.
Preferential Intercalation of Human Amyloid-β Peptide into Interbilayer Region of Lipid-Raft Membrane in Macromolecular Crowding Environment.
Self-folding of supramolecular polymers into bioinspired topology.
Grain coarsening on the free surface and in the thickness direction of a sphere-forming triblock copolymer film.
Direct Evidence for the Effect of Glycerol on Protein Hydration and Thermal Structural Transition.
Compact Seahorse-Shaped T Cell-Activating Antibody for Cancer Therapy.
Structural analyses of sphere- and cylinder-forming triblock copolymer thin films near the free surface by atomic force microscopy, X-ray photoelectron spectroscopy, and grazing-incidence small-angle X-ray scattering. Synchrotron SAXS Studies on Lattice Structure of Spherical Micelles in Binary Mixtures of Block Copolymers and Homopolymers. LysRタイプ転写調節因子CbnRのDNA結合ドメインとDNAとの複合体構造 Crystal structure of the nitrosuccinate lyase CreD in complex with fumarate provides insights into the catalytic mechanism for nitrous acid elimination. Protective action of trehalose and glucose on protein hydration shell clarified by using X-ray and neutron scattering. キノコ由来ガレクチンACGの糖認識メカニズム Carbohydrate Recognition Mechanism of the Mushroom Galectin ACG Crystal structure of the DNA–binding domain of the LysR–type transcriptional regulator CbnR in complex with a DNA fragment of the recognition binding site in the promoter region Structure, function and engineering of multifunctional non-heme iron dependent oxygenases in fungal meroterpenoid biosynthesis
Macromolecular crowding effect on protein structure and hydration clarified by using X-ray and neutron scattering.
Solution scattering approaches to dynamical ordering in biomolecular systems.
2017
Anaerobic crystallization of proteins Generation of Conformation-Specific Antibody Fragments for Crystallization of the Multidrug Resistance Transporter MdfA. Leading role of TBP in the establishment of complexity in eukaryotic transcription initiation systems Structural biology of mulcular dystrophy by X-ray crystallography
Structural biology of mulcular dystrophy by X-ray crystallography
An Introduction to the crystallographic study of enzymes for organic chemists, with a sample analysis pf extradiol ring-cleavage dioxygenases Amino acid residues critical for DNA binding and inducer recognition in CbnR, a LysR-type transcriptional regulator from Cupriavidus necator NH9. Differential Mechanisms for SHP2 Binding and Activation Are Exploited by Geographically Distinct Helicobacter pylori CagA Oncoproteins. 筋ジストロフィーの構造生物学 Experimental phase determination with selenomethionine or mercury-derivatization in serial femtosecond crystallography X-ray structure of a protease-resistant mutant form of human galectin-9 having two carbohydrate recognition domains with a metal-binding site. The multidrug-resistance transporter MdfA from Escherichia coli : crystallization and X-ray diffraction analysis The crystal structure of a new O-demethylase from Sphingobium sp. strain SYK-6. Crystallographic analysis of murine p24γ2 Golgi dynamics domain. Improved method for soluble expression and rapid purification of yeast TFIIA. MD-SAXS法によるビタミンD受容体リガンド結合ドメインの不活性型および活性阻害型の溶液構造解析
Orienting cylindrical microdomains in polystyrene-b-poly(ethylene-co-butylene)-b-polystyrene triblock copolymer/diluent sheet by application of temperature gradient Structural basis for tRNA-dependent cysteine biosynthesis. Crystal structure of the flexible tandem repeat domain of bacterial cellulose synthesis subunit C. Mechanism of Catalytic Microtubule Depolymerization via KIF2-Tubulin Transitional Conformation. Structure-based analysis of the guanine nucleotide exchange factor SmgGDS reveals armadillo-repeat motifs and key regions for activity and GTPase binding. Time-resolved 2d-SAXS measurements to reveal mechanism of cylinder orientation upon sphere-to-cylinder transition under a planar flow in an SEBS triblock copolymer sheet. Strain-Induced Deformation of Glassy Spherical Microdomains in Elastomeric Triblock Copolymer Films: Time-Resolved 2d-SAXS Measurements under Stretched State.
Light-induced unfolding and refolding of supramolecular polymer nanofibres. Coalescence of non-equilibrium spheres through thermal annealing in a polystyrene-block-poly(ethylene-co-butylene)-block-polystyrene triblock copolymer film under a uniaxially stretched state.
Supramolecular Polymerization of Supermacrocycles: Effect of Molecular Conformations on Kinetics and Morphology. Frank-Kasper sigma phase in polybutadiene-poly(epsilon-caprolactone) diblock copolymer / polybutadiene blends.
Microscopic analyses of complexes formed in adsorbent for Mo and Zr separation chromatography. Leading role of TBP in the establishment of complexity in eukaryotic transcription initiation systems. Experimental phase determination with selenomethionine or mercury-derivatization in serial femtosecond crystallography. Amino acid residues critical for DNA binding and inducer recognition in CbnR, a LysR-type transcriptional regulator from Cupriavidus necator NH9. Differential Mechanisms for SHP2 Binding and Activation Are Exploited by Geographically Distinct Helicobacter pylori CagA Oncoproteins. Characterization of Heme Orientational Disorder in a Myoglobin Reconstituted with a Trifluoromethyl Group-Substituted Heme Cofactor. POMGnT1の構造解析による筋ジストロフィー疾患発症機序解明 X-ray structure of a protease-resistant mutant form of human galectin-9 having two carbohydrate recognition domains with a metal-binding site. The multidrug-resistance transporter MdfA from Escherichia coli : crystallization and X-ray diffraction analysis. The First Crystal Structure of a Family 129 Glycoside Hydrolase from a Probiotic Bacterium Reveals Critical Residues and Metal Co-factors. The crystal structure of a new O-demethylase from Sphingobium sp. strain SYK-6. Improved method for soluble expression and rapid purification of yeast TFIIA. 3D structural analysis of protein O-mannosyl kinase, POMK, a causative gene product of dystroglycanopathy. Crystallographic analysis of murine p24γ2 Golgi dynamics domain.
2016
A class-A GPCR solubilized under high hydrostatic pressure retains its ligand binding ability. Structural analysis of polymer thin films using GISAXS in the tender X- ray region: Concept and design of GISAXS experiments using the tender X- ray energy at BL-15A2 at the Photon Factory.
Trisaccharide containing α2,3-linked sialic acid acid is a receptor for mumps virus.
Apo- and antagonist-binding structures of vitamin D receptor ligand-binding domain revealed by hybrid approach combining small-angle X-ray scattering and molecular dynamics.
Effect of Cholesterol on the Interaction of Cytochrome P450 Substrate Drug Chlozoxazone with the Phosphatidylcholine Bilayer.
Test results of a counting type SOI device for a new x-ray area detector.
Monomeric Form of Peptidylarginine Deiminase Type I Revealed by X-ray Crystallography and Small-Angle X-ray Scattering.
Novel helical assembly in arginine methyltransferase 8.
Binding interactions of the peripheral stalk subunit isoforms from human V-ATPase.
Six independent fucose-binding sites in the crystal structure of Aspergillus oryzae lectin. Carbohydrate-binding domain of the POMGnT1 stem region modulates O-mannosylation sites of α-dystroglycan. Development of sample exchange robot PAM-HC for beamline BL-1A at the photon factory. Newly designed double surface bimorph mirror for BL-15A of the photon factory. In-situ data collection at the photon factory macromolecular crystallography beamlines. Upgrade of small angle x-ray scattering beamline BL-6A at the photon factory. Test results of a counting type SOI device for a new x-ray area detector. Software development for analysis of small-angle x-ray scattering data. On the influence of crystal size and wavelength on native SAD phasing. Uncovering ancient transcription systems with a novel evolutionary indicator. A conserved island of BAG6/Scythe is related to ubiquitin domains and participates in short hydrophobicity recognition. Classification and Comparison of Fucose-Binding Lectins Based on Their Structures 立体構造に基づいたフコースを結合するレクチンの比較と分類 Use of multiple cryoprotectants to improve diffraction quality from protein crystals. A novel method of preparing the monoform structure of catalytic antibody light chain. The Lipid Kinase PI5P4Kβ Is an Intracellular GTP Sensor for Metabolism and Tumorigenesis.
2015
Effect of encapsulation of proteins on thermal stability of lipid liposome composed of glycosphingolipd, cholesterol, and phospholipid.
The influence of metallic brazing materials on the strain formation
of internally water-cooled X-ray optics.
Dramatic increase in SHP2 binding activity of Helicobacter pylori Western CagA by EPIYA-C duplication: its implications in gastric carcinogenesis. POMGNT1 is glycosylated by mucin-type O-glycans. Structure of a BAG6 (Bcl-2-associated Athanogene 6)-Ubl4a (Ubiquitin-like Protein 4a) Complex Reveals a Novel Binding Interface That Functions in Tail-anchored Protein Biogenesis. セレン含有糖鎖を用いた糖鎖結合タンパク質の位相決定法
X-ray Crystallography of Sugar Related Proteins
2014
Small-Angle X-ray Scattering Studies on Melting and Recrystallization Behaviors of Poly(oxyethylene) Crystallites in Poly(d,l-lactide) / Poly(oxyethylene) Blends.
Molecular mechanism of strict substrate specificity of an extradiol dioxygenase, DesB, derived from Sphingobium sp. SYK-6. Expanded potential of seleno-carbohydrates as a molecular tool for X-ray structural determination of a carbohydrate-protein complex with single/multi-wavelength anomalous dispersion phasing. Mechanism underlying IKK activation mediated by the linear ubiquitin chain assembly complex (LUBAC). Structural basis of the autophagy-related LC3/Atg13 LIR complex: recognition and interaction mechanism. A New Structure Determination Method of Lectins, Using a Selenium-containing Sugar Ligand.
2013
Mutant LV(476-7)AA of A-subunit of Enterococcus hirae V1-ATPase: High affinity of A3B3 complex to DF axis and low ATPase activity.
Loose binding of the DF axis with the A3B3 complex stimulates the initial activity of Enterococcus hirae V1-ATPase.
Structure of liposome encapsulating proteins characterized by X-ray scattering and shell-modeling.
New high-brilliance beamline BL-15A of the Photon Factory.
Refurbishing of Small-Angle X-ray Scattering Beamline, BL-6A at the Photon Factory.
Conformational change of a unique sequence in a fungal galectin from Agrocybe cylindracea controls glycan ligand-binding specificity. Improvement of an Automated Protein Crystal Exchange System PAM for High-throughput Data Collection. Improvements toward highly accurate diffraction experiments at the macromolecular micro-crystallography beamline BL-17A. New methodologies at PF AR-NW12A: the implementation of high-pressure macromolecular crystallography. Structural basis for phosphorylation-triggered autophagic clearance of Salmonella. Structural basis of preferential binding of fucose-containing saccharide by the Caenorhabditis elegans galectin LEC-6. Direct metal recognition by guanine nucleotide exchange factor in the initial step of exchange reaction. Data Management System at the Photon Factory Macromolecular Crystallography Beamline Current status and future prospects of an automated sample exchange system PAM for protein crystallography 10 years of protein crystallography at AR-NW12A beamline
2012
The binding mechanism of eIF2β with its partner proteins, eIF5 and eIF2βε.
Structural basis for membrane binding specificity of the Bin/Amphiphysin/Rvs(BAR) domain of Arfaptin-2 determined by Arl1 GTPase. Beamline AR-NW12A: high-throughput beamline for macromolecular crystallography at the Photon Factory S-SAD phasing study of death receptor 6 and its solution conformation revealed by SAXS Structural basis for Arf6-MKLP1 complex formation on the Flemming body responsible for cytokinesis High-pressure-induced water penetration into 3-isopropylmalage dehydrogenase Structural basis of the strict phospholipid binding specificity of the pleckstrin homology domain of human evectin-2 Structure of a compact conformation of linear diubiquitin
Rohaim, A., Kawasaki, M., Kato, R., Dikic, I. & Wakatsuki, S.PF構造生物学ビームラインにおける全自動回折データセット収集／処理システムの開発 ヒト由来Evectin-2のリン脂質結合特異性についての構造学的洞察
2011
Intracellular phosphatidylserine is essential for retrograde membrane traffic through endosomes UV LED lighting for automated crystal centring Improved Inactivation Effect of Bacteria: Fabrication of Mesoporous Anatase
Films with Fine Ag Nanoparticles Prepared by Coaxial Vacuum Arc Deposition Selective binding of linear ubiquitin chains to NEMO in NF-kB activation
2010年
GDP-bound and nucleotide-free intermediates of the guanine nucleotideexchange in the Rab5/Vps9 system Uejima, T., Ihara, K., Goh, T., Ito, E., Sunada, M., Ueda, T., Nakano, A. & Wakatsuki, S.Crystallization of small proteins assisted by green fluorescent protein Crystal structure of cyclic Lys48-linked tetraubiquitin Unusual antibacterial property of mesoporous titania films: drastic improvement by controlling surface area and crystallinity Molecular basis for defect in Alix-binding by alternatively spliced isoform of ALG-2 (ALG-2DeltaGF122) and structural roles of F122 intarget recognition GMF is an evolutionarily developed ADF/cofilin-super family protein involved in the Arp2/3 complex-mediated organization of the actin cytoskeleton Complexity in influenza virus targeted drug design: interaction with human sialidases Crystal structures of the CERT START domain with inhibitors provide insights into the mechanism of ceramide transfer Crystal Structure of UbcH5b-Ubiquitin Intermediate: Insight into the Formation of the Self-Assembled E2-Ub Conjugates 「－リボソーム構造解析の先駆者－ アダ・ヨナット教授に聞く」現代化学 2010年10月号 No.475 2010.9.18発刊 0348710
ターゲットタンパク研究プログラムで目指すX線構造解析の高度化：フォトンファクトリーにおける技術開発 ターゲットタンパク研究プログラムの目指す放射光構造生物学 「入門 構造生物学 －放射光Ｘ線と中性子で最新の生命現象を読み解く－」共立出版 2010.4.25発刊 ISBN978-4-320-05704-3
2009年
AR-NE3A, a New Macromolecular Crystallography Beamline for Pharmaceutical Applications at the Photon Factory Fully Automated Data Collection Using PAM and the Development of PAM/SPACE Reversible Cassettes Specific recognition of linear ubiquitin chains by NEMO is important for NF-kappaB activation Structural analysis of the recognition mechanism of poly-N-acetyllactosamine by the human galectin-9 N-terminal carbohydrate recognition domain 高難度蛋白質をターゲットとした放射光X線結晶構造解析技術の開発
NEMOによる直鎖状ユビキチン鎖の特異的認識はNF-κB活性化に重要である
エフェクタータンパク質群によるRab27取り込みへの構造的知見 The mechanism of Ca2+-dependent recognition of Alix by ALG-2: insights from X-ray crystal structures
2008年
Nucleotide-Dependent Conformational Changes and Assembly of the AAA ATPase SKD1/VPS4B Crystallization and X-ray diffraction analysis of N-terminally truncated human ALG-2 1,2-alpha-l-Fucosynthase: A glycosynthase derived from an inverting alpha-glycosidase with an unusual reaction mechanism Structural basis for Ca2+ -dependent formation of ALG-2/Alix peptide complex: Ca2+/EF3-driven arginine switch mechanism Elucidation of Rab27 Recruitment by Its Effectors: Structure of Rab27a Bound to Exophilin4/Slp2-a Purification, crystallization and preliminary X-ray crystallographic analysis of Rab27a GTPase in complex with exophilin4/Slp2-a effector Structural basis for tropomyosin overlap in thin (actin) filaments and the generation of a molecular swivel by troponin-T Miranda cargo-binding domain forms an elongated coiled-coil homodimer in solution: implications for asymmetric cell division in Drosophila Development of an X-ray HARP-FEA detector system for high-throughput protein crystallography X-ray beam stabilization at BL-17A, the protein microcrystallography beamline of the Photon Factory Implementation of remote monitoring and diffraction evaluation systems at the Photon Factory macromolecular crystallography beamlines High-throughput operation of sample-exchange robots with double tongs at the Photon Factory beamlines Structural basis for specific lipid recognition by CERT responsible for nonvesicular trafficking of ceramide Structural Analysis of the Human Galectin-9 N-terminal Carbohydrate Recognition Domain Reveals Unexpected Properties that Differ from the Mouse Orthologue Biophysical methods: structure, function and dynamics studies of macromolecular assemblies using electrons, lasers, neutrons and X-rays 蛋白質Ｘ線結晶構造解析ー放射光を利用した回折実験 糖鎖情報の独自性と普遍性「糖鎖－ガレクチン蛋白質間の相互作用の分子機構」
特集タンパク3000プロジェクトの産んだもの、第Ⅰ部、成果とインパクト:個別的解析拠点の研究成果、「翻訳後修飾と輸送、真核生物における構造機能生物学」
ビフィズス菌由来ＡｆｃＡフコシダーゼ触媒ドメインの立体構造解析
2007年
Design and Construction of the High-speed Network Connecting All the Protein Crystallography Beam Lines at the Photon Factory Automated Sample Exchange Robots for the Structural Biology Beam Lines at the Photon Factory Development of Control Applications for High-Throughput Protein Crystallography Experiments BL-17A, A New Protein Micro-Crystallography Beam Line of the Photon Factory Design of Disulfide-linked Thioredoxin Dimers and Multimers Through Analysis of Crystal Contacts Structural Basis for Recognition of High Mannose Type Glycoproteins by Mammalian Transport Lectin VIP36 Structure of the small GTPase Rab27b shows an unexpected swapped dimer Molecular Basis for Autoregulatory Interaction Between GAE Domain and Hinge Region of GGA1 Structural basis on the catalytic reaction mechanism of novel 1,2-alpha-L-fucosidase (AFCA) from Bifidobacterium bifidum X-ray phase imaging of biological soft tissue using a direct-sensing x-ray HARP tube camera フォトンファクトリー構造生物ビームラインにおける自動化に向けた取り組み FIP3による低分子量GTPase Rab11の認識機構の研究 小特集 結晶評価技術の新展開、解説、「蛋白質結晶評価技術の新展開」
2006年
Structural basis of ubiquitin recognition by mammalian Eap45 GLUE domain Monoubiquitylation of GGA3 by hVPS18 regulates its ubiquitin-binding ability Crystal structure of the galectin-9 N-terminal carbohydrate recognition domain from Mus musculus reveals the basic mechanism of carbohydrate recognition Crystal structure of GlcAT-S, a human glucuronyltransferase, involved in the biosynthesis of the HNK-1 carbohydrate epitope Structural basis for Rab11-dependent membrane recruitment of a family of Rab11-interacting protein 3 (FIP3)/Arfophilin-1 Development of an automated large-scale protein-crystallization and monitoring system for high-throughput protein-structure analyses Structural Basis of Carbohydrate Transfer Activity by Human UDP-GalNAc: Polypeptide alpha-N-Acetylgalactosaminyltransferase (pp-GalNAc-T10) Structures of carbohydrate recognition domain of Ca2+ -independent cargo receptors Emp46p and Emp47p Double-sided ubiquitin binding of Hrs-UIM in endosomal protein sorting
2005年
Structural basis for transcription inhibition by tagetitoxin Structural basis for recognition of ubiquitinated cargo by Tom1-GAT domain Structural basis of transcription inhibition by antibiotic streptolydigin Allosteric modulation of the RNA polymerase catalytic reaction is an essential component of transcription control by rifamycins Structure of the ectodomain of Drosophila peptidoglycan-recognition protein LCa suggests a molecular mechanism for pattern recognition Molecular mechanism of ubiquitin recognition by GGA3 GAT domain Structure determination of GGA-GAE and gamma1-ear in complex with peptides: crystallization of low-affinity complexes in membrane traffic Eap45 in mammalian ESCRT-II binds ubiquitin via a phosphoinositide-interacting GLUE domain Crystal structure of the human cytosolic sialidase Neu2. Evidence for the dynamic nature of substrate recognition Membrane recruitment of effector proteins by Arf and Rab GTPases 入門講座、こんなことができる放射光（10）、「構造プロテオミクス科学時代の放射光結晶学」 総説、「GGA-メンブレン･トラフィックを調節する新規のクラスリンアダプターの構想と機能-」
みにれびゅう、「HNK-1糖鎖の生合成に必須な糖転移酵素ＧｌｃAT-Pのユニークな糖鎖基質認識機構」
特集構造ゲノムプロジェクトの進展、「蛋白質Ｘ線結晶構造解析手法の成熟」
2004年
Insights into the phosphoregulation of beta-secretase sorting signal by the VHS domain of GGA1 Structural basis for acceptor substrate recognition of a human glucuronyltransferase, GlcAT-P, an enzyme critical in the biosynthesis of the carbohydrate epitope HNK-1 GAT (GGA and Tom1) domain responsible for ubiquitin binding and ubiquitination Secure UNIX socket-based controlling system for high-throughput protein crystallography experiments ゲノミクス･プロテオミクスの新展開 生物情報の解析と応用 「Ｘ線結晶構造解析 タンパク質結晶Ｘ線回折実験における自動化」
ゲノミクス･プロテオミクスの新展開 生物情報の解析と応用 「Ｘ線結晶構造解析 タンパク質結晶構造解析ビームライン(Photon Factory)」
「タンパク質の成熟：糖鎖修飾と輸送」
2003年
Molecular mechanism of membrane recruitment of GGA by ARF in lysosomal protein transport The structure and function of GGAs, the traffic controllers at the TGN sorting crossroads
2002年
Structural basis for the accessory protein recruitment by the gamma-adaptin ear domain Structural basis for recognition of acidic-cluster dileucine sequence by GGA1
