Biophysics and Physicobiology

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Articles in XML Format

2018
Kitamura A. et al. (2018) Determination of diffusion coefficients in live cells using fluorescence recovery after photobleaching with wide-field fluorescence microscopy 15, 1-7. XML
Nakatani Y. et al. (2018) "Quantitative analyses of the equilibria among DNA complexes of a blue-light-regulated bZIP module, Photozipper" 15, 8-17. XML
Sato R. et al. (2018) The binding structure and affinity of photodamaged duplex DNA with members of the photolyase/cryptochrome family: A computational study 15, 18-27. XML
Fujii T. et al. (2018) Evidence for the hook supercoiling mechanism of the bacterial flagellum 15, 28-32. XML
Odera M. et al. (2018) Molecular dynamics simulation study on the structural instability of the most common cystic fibrosis-associated mutant ΔF508-CFTR 15, 33-44. XML
Nagashima H. et al. (2018) Magnetic structure of manganese cluster in photosystem II investigated by electron paramagnetic resonance 15, 45-50. XML
Nagai KH. et al. (2018) Collective motion of rod-shaped self-propelled particles through collision 15, 51-57. XML
Arikawa K. et al. (2018) Theoretical framework for analyzing structural compliance properties of proteins 15, 58-74. XML
2017
Suzuki K. et al. (2017) Mechanical properties of spindle poles are symmetrically balanced. 14, 1-11. XML
Zamani A. et al. (2017) Kinetic characteristics of chimeric channelrhodopsins implicate the molecular identity involved in desensitization. 14, 13-22. XML
Takahashi K. et al. (2017) Enhanced mRNA-protein fusion efficiency of a single-domain antibody by selection of mRNA display with additional random sequences in the terminal translated regions. 14, 23-28. XML
Murakami Y. et al. (2017) Model-based control of the temporal patterns of intracellular signaling in silico. 14, 29-40. XML
Mitome N. et al. (2017) Identification of aqueous access residues of the sodium half channel in transmembrane helix 5 of the Fo-a subunit of Propionigenium modestum ATP synthase. 14, 41-47. XML
Tamogami J. et al. (2017) "Existence of two O-like intermediates in the photocycle of Acetabularia rhodopsin II, a light-driven proton pump from a marine alga." 14, 49-55. XML
Yamauchi Y. et al. (2017) Molecular properties of a DTD channelrhodopsin from Guillardia theta. 14, 57-66. XML
Shibata K. et al. (2017) Mutations in the SH1 helix alter the thermal properties of myosin II 14, 67-73. XML
Yoshizawa R. et al. (2017) Single-molecule fluorescence imaging of RalGDS on cell surfaces during signal transduction from Ras to Ral 14, 75-84. XML
Sakata S. et al. (2017) Domain-to-domain coupling in voltage-sensing phosphatase 14, 85-97. XML
Kinjo AR. et al. (2017) Monte Carlo simulation of a statistical mechanical model of multiple protein sequence alignment 14, 99-110. XML
Yamada Y. et al. (2017) Demonstration of correlative atomic force and transmission electron microscopy using actin cytoskeleton 14, 111-117. XML
Machiyama H. et al. (2017) The use of a genetically encoded molecular crowding sensor in various biological phenomena 14, 119-125. XML
Shibata M. et al. (2017) High-speed atomic force microscopy imaging of live mammalian cells 14, 127-135. XML
Hashimoto A. et al. (2017) The change of picrotoxin-induced epileptiform discharges to the beta oscillation by carbachol in rat hippocampal slices 14, 137-146. XML
Kumai T. et al. (2017) Isn't there an inductance factor in the plasma membrane of nerves? 14, 147-152. XML
Yamamoto E. et al. (2017) Computational and theoretical approaches for studies of a lipid recognition protein on biological membranes 14, 153-160. XML
Arai N. et al. (2017) Analysis of an ATP-induced conformational transition of ABC transporter MsbA using a coarse-grained model 14, 161-171. XML
Kondo S. et al. (2017) Analysis of the GTPase motif of FlhF in the control of the number and location of polar flagella in Vibrio alginolyticus 14, 173-181. XML
Yoshida K. et al. (2017) Chimeric microbial rhodopsins for optical activation of Gs-proteins 14, 183-190. XML
Terashima H. et al. (2017) Structural differences in the bacterial flagellar motor among bacterial species 14, 191-198. XML
Hashimoto H. et al. (2017) Structural basis for the molecular interactions in DNA damage tolerances 14, 199-205. XML
Miyashiro D. et al. (2017) Radial stiffness characteristics of the overlap regions of sarcomeres in isolated skeletal myofibrils in pre-force generating state 14, 207-220. XML
2016
Nakamura Y. et al. (2016) Switching of the positive feedback for RAS activation by a concerted function of SOS membrane association domains. 13, 1-11. XML
Komatsu H. et al. (2016) Genetic analysis of revertants isolated from the rod-fragile fliF mutant of Salmonella. 13, 13-25. XML
Takano Y. et al. (2016) Density functional study of molecular interactions in secondary structures of proteins. 13, 27-35. XML
Yamato I. et al. (2016) Operating principles of rotary molecular motors: differences between F1 and V1 motors. 13, 37-44. XML
Kinjo AR. (2016) A unified statistical model of protein multiple sequence alignment integrating direct coupling and insertions. 13, 45-62. XML
Iizuka R. et al. (2016) Chaperonin GroEL uses asymmetric and symmetric reaction cycles in response to the concentration of non-native substrate proteins. 13, 63-69. XML
Okamoto A. et al. (2016) Cation-limited kinetic model for microbial extracellular electron transport via an outer membrane cytochrome C complex. 13, 71-76. XML
Tanaka W. et al. (2016) Molecular mechanisms of substrate specificities of uridine-cytidine kinase. 13, 77-84. XML
Yura K. (2016) Preface of Special Issue "Protein-Ligand Interactions". 13, 85-86. XML
Ishii K. et al. (2016) Mass spectrometric analysis of protein_ligand interactions. 13, 87-95. XML
Iakovou G. et al. (2016) Determination of locked interfaces in biomolecular complexes using Haptimol_RD. 13, 97-103. XML
Uchikoga N. et al. (2016) Specificity of broad protein interaction surfaces for proteins with multiple binding partners. 13, 105-115. XML
Taguchi J. et al. (2016) Dynamic profile analysis to characterize dynamics-driven allosteric sites in enzymes. 13, 117-126. XML
Suzuki Y. et al. (2016) Conformational shift in the closed state of GroEL induced by ATP-binding triggers a transition to the open state. 13, 127-134. XML
Oda M. et al. (2016) Effects of substrate conformational strain on binding kinetics of catalytic antibodies. 13, 135-138. XML
Nakamura T. et al. (2016) Effects of the difference in similarity measures on the comparison of ligand-binding pockets using a reduced vector representation of pockets. 13, 139-147. XML
Okuno T. et al. (2016) Importance of consensus region of multiple-ligand templates in a virtual screening method. 13, 149-156. XML
Yamada KD. et al. (2016) Structural characterization of single nucleotide variants at ligand binding sites and enzyme active sites of human proteins. 13, 157-163. XML
Imai H. et al. (2016) Amino acid residues of bitter taste receptor TAS2R16 that determine sensitivity in primates to β-glycosides. 13, 165-171. XML
Kim OT. et al. (2016) In silico studies for the interaction of tumor necrosis factor-alpha (TNF-α) with different saponins from Vietnamese ginseng (Panax vietnamesis). 13, 173-180. XML
Sakano T. et al. (2016) Molecular dynamics analysis to evaluate docking pose prediction. 13, 181-194. XML
Kotera M. et al. (2016) Metabolic pathway reconstruction strategies for central metabolism and natural product biosynthesis. 13, 195-205. XML
Kasahara K. et al. (2016) myPresto/omegagene: a GPU-accelerated molecular dynamics simulator tailored for enhanced conformational sampling methods with a non-Ewald electrostatic scheme. 13, 209-216. XML
Nakagome K. et al. (2016) Model simulation of the SPOC wave in a bundle of striated myofibrils. 13, 217-226. XML
Onoue Y. et al. (2016) Domain-based biophysical characterization of the structural and thermal stability of FliG, an essential rotor component of the Na+-driven flagellar motor. 13, 227-233. XML
Furuike Y. et al. (2016) Accelerating in vitro studies on circadian clock systems using an automated sampling device. 13, 235-241. XML
Yura K. et al. (2016) Memorial Issue for Professor Nobuhiko Saito. 13, 243. XML
Yura K. (2016) Obituary: Nobuhiko Saito, a man who understood protein folding in his own way 13,245-247.
Go M. (2016) Professor Nobuhiko Saito's contribution to statistical mechanics of biopolymers. 13, 249-250. XML
Kobayashi Y. (2016) Statistical mechanics of protein structural transitions: Insights from the island model. 13, 251-262. XML
Wako H. et al. (2016) Characterization of protein folding by a Φ-value calculation with a statistical-mechanical model. 13, 263-279. XML
Sasai M. et al. (2016) Cooperativity and modularity in protein folding. 13, 281-293. XML
Ota M. et al. (2016) Itinerary profiling to analyze a large number of protein-folding trajectories. 13, 295-304. XML
Mitaku S. et al. (2016) What parameters characterize "life"? 13, 305-310. XML
Sato R. et al. (2016) Theoretical analyses on a flipping mechanism of UV-induced DNA damage. 13, 311-319. XML
Shibata K. et al. (2016) Actin binding domain of filamin distinguishes posterior from anterior actin filaments in migrating Dictyostelium cells. 13, 321-331. XML
2015
Oda K. et al. (2015) Physicochemical origin of high correlation between thermal stability of a protein and its packing efficiency: a theoretical study for staphylococcal nuclease mutants. 12, 1-12. XML
Okuda S. et al. (2015) Three-dimensional vertex model for simulating multicellular morphogenesis. 12, 13-20. XML
Nakashima H. et al. (2015) The molecular dynamics of crawling migration in microtubule-disrupted keratocytes. 12, 21-29. XML
Koshiba T. et al. (2015) Protein-protein interactions of mitochondrial-associated protein via bioluminescence resonance energy transfer. 12, 31-35. XML
Furutani Y. et al. (2015) Specific interactions between alkali metal cations and the KcsA channel studied using ATR-FTIR spectroscopy. 12, 37-45. XML
Kanamori E. et al. (2015) Structural comparison between the open and closed forms of citrate synthase from Thermus thermophilus HB8. 12, 47-56. XML
Tomono T. et al. (2015) Investigation of glycan evolution based on a comprehensive analysis of glycosyltransferases using phylogenetic profiling. 12, 57-68. XML
Yanagisawa Y. et al. (2015) Time-resolved chemiluminescence of firefly luciferin generated by dissolving oxygen in deoxygenated dimethyl sulfoxide containing potassium tert-butoxide. 12, 69-78. XML
Morikawa M. et al. (2015) Subattomole detection of adiponectin in urine by ultrasensitive ELISA coupled with thio-NAD cycling. 12, 79-86. XML
Wazawa T. et al. (2015) Rotational motion of rhodamine 6G tethered to actin through oligo(ethylene glycol) linkers studied by frequency-domain fluorescence anisotropy. 12, 87-102. XML
Aoto S. et al. (2015) Case study on the evolution of hetero-oligomer interfaces based on the differences in paralogous proteins 12, 103-116. XML
Kinjo AR. et al. (2015) Liquid-theory analogy of direct-coupling analysis of multiple-sequence alignment and its implications for protein structure prediction. 12, 117-119. XML
Kurihara M. et al. (2015) "Microbial rhodopsins: wide distribution, rich diversity and great potential." 12, 121-129. XML
Watanabe G. et al. (2015) Analysis of water channels by molecular dynamics simulation of heterotetrameric sarcosine oxidase. 12, 131-138. XML
Yamada D. et al. (2015) Structural role of two histidines in the (6-4) photolyase reaction. 12, 139-144. XML
Mtsuo T. et al. (2015) Structures of the troponin core domain containing the cardiomyopathy-causing mutants studied by small-angle X-ray scattering. 12, 145-158. XML
Yamagishi M. et al. (2015) Effects of serotonin on the heartbeat of pond snails in a hunger state. 11, 1-5. XML
Ito E. (2015) Preface of Special Issue TRP channels: their functional roles in medical sciences. 11, 7-8. XML
Lin YW. et al. (2015) Electrophysiological characteristics of IB4-negative TRPV1-expressing muscle afferent DRG neurons. 11, 9-16. XML
Ho JC. et al. (2015) TRP channels in skin: from physiological implications to clinical significances. 11, 17-24. XML
Hsu WL. et al. (2015) Role of TRP channels in the induction of heat shock proteins (Hsps) by heating skin. 11, 25-32. XML
Ito E. et al. (2015) Thermodynamic implications of high Q10 of thermoTRP channels in living cells. 11, 33-38. XML
Mahaputra Wijaya IM. et al. (2015) FTIR study of CPD photolyase with substrate in single strand DNA. 11, 39-45. XML
Ikezaki K. et al. (2015) Lever arm extension of myosin VI is unnecessary for the adjacent binding state. 11, 47-53. XML
Dyakonova V. et al. (2015) The activity of isolated snail neurons controlling locomotion is affected by glucose. 11, 55-60. XML
Katayama K. et al. (2015) FTIR study of primate color visual pigments. 11, 61-66. XML
Fujii S. et al. (2015) In vitro directed evolution of alpha-hemolysin by liposome display. 11, 67-72. XML
Watanabe T. et al. (2015) A new antigenic marker specifically labels a subpopulation of the class II Kenyon cells in the brain of the European honeybee Apis mellifera. 11, 73-77. XML
Mukaiyama A. et al. (2015) A protocol for preparing nucleotide-free KaiC monomer. 11, 79-34. XML
Kajita MK. et al. (2015) Experimental and theoretical bases for mechanisms of antigen discrimination by T cells. 11, 85-92. XML
Motojima F. et al. (2015) How do chaperonins fold protein? 11, 93-102. XML
Yanaka S. et al. (2015) Revealing the peptide presenting process of human leukocyte antigen through the analysis of fluctuation. 11, 103-106. XML
Oda K. et al. (2015) Physicochemical origin of high correlation between thermal stability of a protein and its packing efficiency: a theoretical study for staphylococcal nuclease mutants. 12, 1-12. XML
2014
Yamazaki Y. et al. (2014) Mapping of the local environmental changes in proteins by cysteine scanning. 10, 1-7. XML
Qin ZJ. et al. (2014) α-helix formation rate of oligopeptides at subzero temperatures. 10, 9-13. XML
Arai H. et al. (2014) Optimal terminal sequences for continuous or serial isothermal amplification of dsRNA with norovirus RNA replicase. 10, 15-23. XML
Fujisawa J. et al. (2014) Uncovering the mechanism for selective control of the visible and near-IR absorption bands in bacteriochlorophylls a, b and g. 10, 25-34. XML
Nakamura S. et al. (2014) Effect of the MotB(D33N) mutation on stator assembly and rotation of the proton-driven bacterial flagellar motor. 10, 35-41. XML
Fujiwara K. et al. (2014) Reconstitution of intracellular environments in vitro and in artificial cells 10, 43-48. XML
Watabe S. et al. (2014) Ultrasensitive enzyme-linked immunosorbent assay (ELISA) of proteins by combination with the thio-NAD cycling method. 10, 49-54. XML
Sharma H. et al. (2014) Familial clustering of mice consistent to known pedigrees enabled by the genome profiling (GP) method. 10, 55-62. XML
Hashimoto H. et al. (2014) Structural and mutation studies of two DNA demethylation related glycosylases: MBD4 and TDG. 10, 63-68. XML
Fujita K. et al. (2014) Myosin V is a biological greenian machine. 10, 69-75. XML
Takigami S. et al. (2014) Morphological and physiological characteristics of dermal photoreceptors in Lymnaea stagnalis. 10, 77-88. XML
Katayama E. (2014) 3-D structural analysis of the crucial intermediate of skeletal muscle myosin and its role in revised actomyosin cross-bridge cycle 10, 89-97. XML
Nishikawa K. et al. (2014) Cooperation between phenotypic plasticity and genetic mutations can account for the cumulative selection in evolution. 10, 99-108. XML
Itoh H. et al. (2014) Microscopic heat pulse-induced calcium dynamics in single WI-38 fibroblasts. 10, 109-119. XML
Sunada H. et al. (2014) Electrophysiological characteristics of feeding-related neurons after taste avoidance Pavlovian conditioning in Lymnaea stagnalis. 10, 121-133. XML
2013
Kobayashi E. et al. (2013) Distinct conformation of ATP molecule in solution and on protein. 9, 1-12. XML
Maruta T. et al. (2013) Single turnovers of fluorescent ATP bound to bipolar myosin filament during actin filaments sliding. 9, 13-20. XML
Abe-Yoshizumi R. et al. (2013) Expression, purification and biochemical characterization of the cytoplasmic loop of PomA, a stator component of the Na driven flagellar motor. 9, 21-29. XML
Nakamura T. et al. (2013) Mechanism of the nucleotidyl-transfer reaction in DNA polymerase revealed by time-resolved protein crystallography. 9, 31-36. XML
Kinoshita M. et al. (2013) Characterization of the ordered phase formed by sphingomyelin analogues and cholesterol binary mixtures. 9, 37-49. XML
Watanabe R. (2013) Rotary catalysis of F0F1-ATP synthase. 9, 51-56. XML
Kato HE. et al. (2013) Crystal structure of channelrhodopsin, a light-gated cation channel - all cations lead through the monomer. 9, 57-61. XML
Moriya N. et al. (2013) Role of the Dc domain of the bacterial hook protein FlgE in hook assembly and function. 9, 63-72. XML
Itabashi T. et al. (2013) Responses of chromosome segregation machinery to mechanical perturbations. 9, 73-78. XML
Tomisawa S. et al. (2013) A new approach to detect small peptides clearly and sensitively by Western blotting using a vacuum-assisted detection method. 9, 79-83. XML
Nagata T. et al. (2013) Contribution of a visual pigment absorption spectrum to a visual function: depth perception in a jumping spider. 9, 85-89. XML
Toyabe S. et al. (2013) Experimental thermodynamics of single molecular motor. 9, 91-98. XML
Matsuo T. et al. (2013) Difference in hydration structures between F-actin and myosin subfragment-1 detected by small-angle X-ray and neutron scattering. 9, 99-106. XML
Toyabe S. et al. (2013) Information-to-free-energy conversion: Utilizing thermal fluctuations. 9, 107-112. XML
Kawabata T. et al. (2013) LigandBox: A database for 3D structures of chemical compounds. 9, 113-121. XML
Furutani Y. et al. (2013) Development of a rapid Buffer-exchange system for time-resolved ATR-FTIR spectroscopy with the step-scan mode. 9, 123-129. XML
Kobayashi K. et al. (2013) Recent structural studies on Dom34/aPelota and Hbs1/aEF1α: important factors for solving general problems of ribosomal stall in translation. 9, 131-140. XML
Ishikawa T. (2013) 3D structure of eukaryotic flagella/cilia by cryo-electron tomography. 9, 141-148. XML
Aoki T. et al. (2013) Single molecule FRET observation of kinesin-1's head-tail interaction on microtubule. 9, 149-159. XML
Otsuka E. et al. (2013) Increase in cyclic AMP concentration in a cerebral giant interneuron mimics part of a memory trace for conditioned taste aversion of the pond snail. 9, 161-166. XML
Fukuda T. et al. (2013) Detection of a protein-bound water vibration of halorhodopsin in aqueous solution. 9, 167-172. XML
Castillo DJ. et al. (2013) The C-terminal periplasmic domain of MotB is responsible for load-dependent control of the number of stators of the bacterial flagellar motor. 9, 173-181. XML
Yoshoka T. et al. (2013) Physical aspects of sensory transduction on seeing, hearing and smelling. 9, 183-191. XML
2012
Kmiguri J. et al. (2012) Contraction behaviors of Vorticella sp. stalk investigated using high-speed video camera. I: Nucleation and growth model. 8, 1-9. XML
Kmiguri J. et al. (2012) Contraction behaviors of Vorticella sp. stalk investigated using high-speed video camera. II: Viscosity effect of several types of polymer additives. 8, 11-19. XML
Jia Y. et al. (2012) Flow birefringence property of desmin filaments. 8, 21-25. XML
Mitsui T. et al. (2012) Theory of muscle contraction mechanism with cooperative interaction among crossbridges. 8, 27-39. XML
Murakami Y. et al. (2012) Rigor of cell fate decision by variable p53 pulses and roles of cooperative gene expression by p53. 8, 41-50. XML
Taniguchi Y. et al. (2012) Mechanical unfolding studies of protein molecules. 8, 51-58. XML
Fukuoka H. et al. (2012) Coordinated regulation of multiple flagellar motors by the Escherichia coli chemotaxis system. 8, 59-66. XML
Haashi K. et al. (2012) Measurements of the driving forces of bio-motors using the fluctuation theorem. 8, 67-72. XML
Watanabe R. et al. (2012) Chemomechanical coupling of F1-ATPase under hydrolysis conditions. 8, 73-78. XML
Kinjyo AR. et al. (2012) GIRAF: a method for fast search and flexible alignment of ligand binding interfaces in proteins at atomic resolution. 8, 79-94. XML
Mizuno H. et al. (2012) mDia1 and formins: screw cap of the actin filament. 8, 95-102. XML
Morita EH. et al. (2012) Comparative study of the different mechanisms for zinc ion stress sensing in two cyanobacterial strains, Synechococcus sp. PCC 7942 and Synechocystis sp. PCC 6803. 8, 103-109. XML
Hayashi S. et al. (2012) Extraction and purification of a luminiferous substance from the luminous mushroom Mycena chlorophos. 8, 111-114. XML
Hayashi T. et al. (2012) Full-Quantum chemical calculation of the absorption maximum of bacteriorhodopsin: a comprehensive analysis of the amino acid residues contributing to the opsin shift. 8, 115-125. XML
Du S. et al. (2012) A scoring function based on solvation thermodynamics for protein structure prediction. 8, 127-138. XML
Higo J. et al. (2012) Virtual states introduced for overcoming entropic barriers in conformational space. 8, 139-144. XML
Kayama M. et al. (2012) Mechanistic insights from the recent structures of the CRM1 nuclear export complex and its disassembly intermediate. 8, 145-150. XML
Mitsui T. et al. (2012) Proposed model for the flagellar rotary motor with shear stress transmission. 8, 151-162. XML
Yoshida R. (2012) Self-oscillating gels beating like a heart muscle. 8, 163-172. XML
Nishimura M. et al. (2012) Phase dependency of long-term potentiation induction during the intermittent bursts of carbachol-induced β oscillation in rat hippocampal slices. 8, 173-181. XML
2011
Shiba R. et al. (2011) Systematic alanine insertion reveals the essential regions that encode structure formation and activity of dihydrofolate reductase. 7, 1-10. XML
Honda H. et al. (2011) Two-dimensional periodic texture of actin filaments formed upon drying. 7, 11-19. XML
Iwamoto H. (2011) Structure, function and evolution of insect flight muscle. 7, 21-28. XML
Jia Y. et al. (2011) Limited digestion of α-actinin in the presence of F-actin. 7, 29-34. XML
Kitagawa C. et al. (2011) Roles of the C-terminal residues of calmodulin in structure and function. 7, 35-49. XML
Sudo Y. et al. (2011) Functional expression of a two-transmembrane HtrII protein using cell-free synthesis. 7, 51-58. XML
Koike M. et al. (2011) Characterization of the flagellar motor composed of functional GFP-fusion derivatives of FliG in the Na+-driven polar flagellum of Vibrio alginolyticus. 7, 59-67. XML
Mizuno T. et al. (2011) Staurosporine induces lamellipodial widening in locomoting fish keratocytes by abolishing the gradient from radial extension of leading edge. 7, 69-75. XML
Sugawara. et al. (2011) Chemophoresis as a driving force for intracellular organization: Theory and application to plasmid partitioning. 7, 77-88. XML
Iwata T. et al. (2011) Light-induced structural changes of the LOV2 domains in various phototropins revealed by FTIR spectroscopy. 7, 89-98. XML
Gerle C. (2011) Stabilization of Fo/Vo/Ao by a radial electric field 7, 99-104. XML
Yoshii N. et al. (2011) Kinetics of binding and diffusivity of leucine-enkephalin in large unilamellar vesicle by pulsed-field-gradient 1H NMR in situ. 7, 105-111. XML
Yoshidome T. (2011) Importance of water entropy in rotation mechanism of F1-ATPase. 7, 113-122. XML
Miyakawa T. et al. (2011) Regulatory mechanism of abscisic acid signaling. 7, 123-128. XML
Tsukazaki T. et al. (2011) The mechanism of protein export enhancement by the SecDF membrane component. 7, 129-133. XML
2010
Sato T. et al. (2010) Actin oligomers at the initial stage of polymerization induced by increasing temperature at low ionic strength: Study with small-angle X-ray scattering. 6, 1-11. XML
Matsuo T. et al. (2010) X-ray fiber diffraction modeling of structural changes of the thin filament upon activation of live vertebrate skeletal muscles. 6, 13-26. XML
Nishikawa K. et al. (2010) Molecular modeling of the HAMP domain of sensory rhodopsin II transducer from Natronomonas pharaonis. 6, 27-36. XML
Kitagawa T. et al. (2010) Modeling of the gap junction of pancreatic β-cells and the robustness of insulin secretion. 6, 37-51. XML
Sakata M. et al. (2010) Estimation for diameter of superparamagnetic particles in Daphnia resting eggs. 6, 53-57. XML
Haruyama T. et al. (2010) Inhibition of thermophilic F1-ATPase by the ε subunit takes different path from the ADP-Mg inhibition. 6, 59-65. XML
Watanabe HC. et al. (2010) Molecular mechanism of long-range synergetic color tuning between multiple amino acid residues in conger rhodopsin. 6, 67-78. XML
2009
Maeno A. et al. (2009) The pressure-temperature phase diagram of hen lysozyme at low pH. 5, 1-9. XML
Majima T. (2009) Load-dependent sliding direction change of a myosin head on an actin molecule and its energetic aspects: Energy borrowing model of a cross-bridge cycle. 5, 11-24. XML
Futagawa A. et al. (2009) Stochastic emergence of multiple intermediates detected by single-molecule quasi-static mechanical unfolding of protein. 5, 25-35. XML
Kinjo AR. et al. (2009) Profile conditional random fields for modeling protein families with structural information. 5, 37-44. XML
Sudo Y. et al. (2009) Comparative study of the ion flux pathway in stator units of proton- and sodium-driven flagellar motors. 5, 45-52. XML
Nishikita K. (2009) Natively unfolded proteins: An overview. 5, 53-58. XML
Suda H. et al. (2009) Analyzing observed or hidden heterogeneity on survival and mortality in an isogenic C. elegans cohort. 5, 59-66. XML
2008
Kinoshita M. et al. (2008) Intermolecular interaction of phosphatidylinositol with the lipid raft molecules sphingomyelin and cholesterol. 4, 1-9. XML
Taniguchi Y. et al. (2008) The forward and backward stepping processes of kinesin are gated by ATP binding. 4, 11-18. XML
Nishioka H. et al. (2008) Correlation between square of electron tunneling matrix element and donor-acceptor distance in fluctuating protein media. 4, 19-28. XML
Akasaka K. et al. (2008) Pressure acceleration of proteolysis: A general mechanism. 4, 29-32. XML
2007
Shinoda K. et al. (2007) Retention of local conformational compactness in unfolding of barnase; Contribution of end-to-end interactions within quasi-modules. 3, 1-12. XML
Fukuhara N. et al. (2007) Prediction of interacting proteins from homology-modeled complex structures using sequence and structure scores. 3, 13-26. XML
Patil A. et al. (2007) The role of charged surface residues in the binding ability of small hubs in protein-protein interaction networks. 3, 27-35. XML
Sawada R. et al. (2007) Ratio of membrane proteins in total proteomes of prokaryota. 3, 37-45. XML
Suzuki S. et al. (2007) Insight into the sequence specificity of a probe on an Affymetrix GeneChip by titration experiments using only one oligonucleotide. 3, 47-56. XML
Irisa M. et al. (2007) Stereoscopic viewing system for proteins using OpenRasmol: a tool for displaying a filament of proteins. 3, 57-61. XML
Miyauchi T. et al. (2007) Rho small GTPase regulates the stability of individual focal adhesions: a FRET-based visualization of GDP/GTP exchange on small GTPases. 3, 63-73. XML
Kinjo AR. et al. (2007) Similarity search for local protein structures at atomic resolution by exploiting a database management system. 3, 75-84. XML
2006
Watanabe YS. et al. (2006) Generation of a flexible loop structural ensemble and its application to induced-fit structural changes following ligand binding. 2, 1-12. XML
Nara I. et al. (2006) Processivity of kinesin motility is enhanced on increasing temperature. 2, 13-21. XML
Iwaoka M. et al. (2006) Possible roles of S-O and S-N interactions in the functions and evolution of phospholipase A2. 2, 23-34. XML
Danev R. et al. (2006) Applicability of thin film phase plates in biological electron microscopy. 2, 35-43. XML
Yahata N. et al. (2006) Roles of charged residues in pH-dependent redox properties of cytochrome c3 from Desulfovibrio vulgaris Miyazaki F. 2, 45-56. XML
Fuchino Y. et al. (2006) Photochemical and photophysical properties of carotenoid immobilized on a surfactant micellar medium including chlorophyll as an artificial photosynthesis system. 2, 57-61. XML
Suzuki T. et al. (2006) Inherent characteristics of gene expression for buffering environmental changes without the corresponding transcriptional regulations. 2, 63-70. XML
2005
Kitamura K. et al. (2005) Mechanism of muscle contraction based on stochastic properties of single actomyosin motors observed in vitro. 1, 1-19. XML
Patil A. et al. (2005) HINT: a database of annotated protein-protein interactions and their homologs. 1, 21-24. XML
Furusawa C. et al. (2005) Ubiquity of log-normal distributions in intra-cellular reaction dynamics. 1, 25-31. XML
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