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Biophysics and Physicobiology
Volume 16, Issue / 2019
English Article Japanese Article
- Please note that metadata of J-type articlesare generated by machine-translation and the original texts are written in Japanese.
Millimeter-sized belt-like pattern formation of actin filaments in solution by interacting with surface myosin in vitro Kentaro Ozawa1, Hirotaka Taomori1, Masayuki Hoshida1, Ituki Kunita2, Sigeru Sakurazawa3, Hajime Honda1 Biophysics and Physicobiology 16: 1-8, 2019. |
Dynamic and static analyses of glass-like properties of three-dimensional tissues Hironobu Nogucci Biophysics and Physicobiology 16: 9-17, 2019. |
Uncovering dehydration in cytochrome c refolding from urea- and guanidine hydrochloride-denatured unfolded state by high pressure spectroscopy Shohei Konno1, Kentaro Doi1, Koichiro Ishimori1,2 Biophysics and Physicobiology 16: 18-27, 2019. |
Functional significance of HCM mutants of tropomyosin, V95A and D175N, studied with in vitro motility assays Shuya Ishii1, Madoka Suzuki2,3, Shin'ichi Ishiwata1, Masataka Kawai4 Biophysics and Physicobiology 16: 28-40, 2019. |
Synchrotron-radiation vacuum-ultraviolet circular dichroism spectroscopy in structural biology : an overview Kunihiko Gekko Biophysics and Physicobiology 16: 41-58, 2019. |
Single-particle analysis of full-length human poly (ADP-ribose) polymerase 1 Kenichi Kouyama1, Kouta Mayanagi2, Setsu Nakae1, Yoshisuke Nishi1, Masanao Miwa1, Tsuyoshi Shirai1 Biophysics and Physicobiology 16: 59-67, 2019. |
Relationship between conformation shift and disease related variation sites in ATP-binding cassette transporter proteins Mika Sakamoto1, Hirofumi Suzuki2, Kei Yura1,2,3 Biophysics and Physicobiology 16: 68-79, 2019. |
Structural and functional properties of Grb2 SH2 dimer in CD28 binding Yuhi Hosoe1, Nobutaka Numoto2, Satomi Inaba1,3, Shuhei Ogawa4, Hisayuki Morii5, Ryo Abe4,6, Nobutoshi Ito2, Masayuki Oda1 Biophysics and Physicobiology 16: 80-88, 2019. |
Biophysics in oviduct : Planar cell polarity, cilia, epithelial fold and tube morphogenesis, egg dynamics Hiroshi Koyama1,2, Dongbo Shi1,3,4, Toshihiko Fujimori1,2,5 Biophysics and Physicobiology 16: 89-107, 2019. |
Dynamic analysis of ribosome by a movie made from many three-dimensional electron-microscopy density maps Atsushi Matsumoto Biophysics and Physicobiology 16: 108-113, 2019. |
Targeted delivery using membrane vesicles in prokaryotes Yosuke Tashiro1,2, Kotaro Takaki1, Hiroyuki Futamata1,2,3 Biophysics and Physicobiology 16: 114-120, 2019. |
Gating modulation of the KCNQ1 channel by KCNE proteins studied by voltage-clamp fluorometry Koichi Nakajo Biophysics and Physicobiology 16: 121-126, 2019. |
Ab-initio study of pyrrole ring deformation in the indole group of 5-HT interacting with water molecules Kei Odai1, Tohru Sugimoto2,4, Etsuro Ito3 Biophysics and Physicobiology 16: 127-131, 2019. |
A novel role of oxytocin : Oxytocin-induced well-being in humans Etsuro Ito1,2, Rei Shima1, Tohru Yoshioka2 Biophysics and Physicobiology 16: 132-139, 2019. |
Cryo-EM studies of the rotary H+-ATPase/synthase from Thermus thermophilus Atsuko Nakanishi1, Jun-ichi Kishikawa1, Kaoru Mitsuoka2, Ken Yokoyama1 Biophysics and Physicobiology 16: 140-146, 2019. |
Second harmonic generation polarization microscopy as a tool for protein structure analysis Junichi Kaneshiro1, Yasushi Okada2,3, Tomohiro Shima2,7, Mika Tsujii4, Katsumi Imada4, Taro Ichimura1,5,6, Tomonobu M.Watanabe1 Biophysics and Physicobiology 16: 147-157, 2019. |
ATP effects on response of human erythrocyte membrane to high pressure Takeo Yamaguchi, Shunji Fukuzaki Biophysics and Physicobiology 16: 158-166, 2019. |
Food deprivation changes chemotaxis behavior in Caenorhabditis elegans Kei Shimizu1, Keita Ashida1, Kohji Hotta1, Kotaro Oka1,2,3 Biophysics and Physicobiology 16: 167-172, 2019. |
Forewords to the special issue "Progress of theoretical and computational biophysics - in honor of Professor Nobuhiro Go's outstanding contribution on the occasion of his 80th birthday" Mikio Kataoka1, Akio Kitao2, Hidetoshi Kono3 Biophysics and Physicobiology 16: 173-175, 2019. |
Confirmation of the formation of salt bridges in the denatured state of CutA1 protein using molecular dynamics simulations Katsuhide Yutani1, Yoshinori Matsuura1, Yasumasa Joti1,2 Biophysics and Physicobiology 16: 176-184, 2019. |
Energetics of cosolvent effect on peptide aggregation Nobuyuki Matubayasi, Keiichi Masutani Biophysics and Physicobiology 16: 185-195, 2019. |
Replica exchange molecular dynamics simulation study on the mechanism of desiccation-induced structuralization of an intrinsically disordered peptide as a model of LEA proteins Tatsushi Nishimoto, Yuta Takahashi, Shohei Miyama, Tadaomi Furuta, Minoru Sakurai Biophysics and Physicobiology 16: 196-204, 2019. |
Normal mode analysis calculation for a full-atom model with a smaller number of degrees of freedom for huge protein molecules Shigeru Endo1, Hiroshi Wako2 Biophysics and Physicobiology 16: 205-212, 2019. |
How can we derive hydration water dynamics with incoherent neutron scattering and molecular dynamics simulation? Hiroshi Nakagawa1, Mikio Kataoka2,3 Biophysics and Physicobiology 16: 213-219, 2019. |
Dynamic properties of oligomers that characterize low-frequency normal modes Hiroshi Wako1, Shigeru Endo2 Biophysics and Physicobiology 16: 220-231, 2019. |
Allosteric response to ligand binding : Molecular dynamics study of the N-terminal domains in IP3 receptor Kei Moritsugu, Tsubasa Ito, Akinori Kidera Biophysics and Physicobiology 16: 232-239, 2019. |
Cancellation between auto- and mutual correlation contributions of protein/water dynamics in terahertz time-domain spectra Yasumasa Joti1,2, Akio Kitao3 Biophysics and Physicobiology 16: 240-247, 2019. |
Go model revisited Shoji Takada Biophysics and Physicobiology 16: 248-255, 2019. |
Snake cube puzzle and protein folding Nobuhiro Go Biophysics and Physicobiology 16: 256-263, 2019. |
A collective motion description of tubulin βT7 loop dynamics Sarbani Chattopadhyaya, Debamitra Chakravorty, Gautam Basu Biophysics and Physicobiology 16: 264-273, 2019. |
Mechanism of the light-driven proton pump of bacteriorhodopsin based on the consistency principle Mikio Kataoka1,2, Hironari Kamikubo1,2 Biophysics and Physicobiology 16: 274-279, 2019. |
All Atom Motion Tree detects side chain-related motions and their coupling with domain motion in proteins Ryotaro Koike, Motonori Ota Biophysics and Physicobiology 16: 280-286, 2019. |
Prediction of the secondary structure of short DNA aptamers Arina Afanasyeva1, Chioko Nagao2, Kenji Mizuguchi1,2 Biophysics and Physicobiology 16: 287-294, 2019. |
More efficient screening of protein-protein complex model structures for reducing the number of candidates Kazuhiro Takemura, Akio Kitao Biophysics and Physicobiology 16: 295-303, 2019. |
Consistency principle for protein design Rie Koga1, Nobuyasu Koga1,2,3 Biophysics and Physicobiology 16: 304-309, 2019. |
Building a macro-mixing dual-basin Go model using the Multistate Bennett Acceptance Ratio Ai Shinobu1, Chigusa Kobayashi1, Yasuhiro Matsunaga2, Yuji Sugita1,3,4 Biophysics and Physicobiology 16: 310-321, 2019. |
Normal mode analysis and beyond Takahisa Yamato1, Olivier Laprevote1,2 Biophysics and Physicobiology 16: 322-327, 2019. |
Methodological improvements for the analysis of domain movements in large biomolecular complexes Ruth Veevers, Steven Hayward Biophysics and Physicobiology 16: 328-336, 2019. |
Free energy profile for unwrapping outer superhelical turn of CENP-A nucleosome Hidetoshi Kono, Shun Sakuraba, Hisashi Ishida Biophysics and Physicobiology 16: 337-343, 2019. |
Protein structure predictions by enhanced conformational sampling methods Yuko Okamoto1,2,3,4,5 Biophysics and Physicobiology 16: 344-366, 2019. |
Parameter optimization for 3D-reconstruction from XFEL diffraction patterns based on Fourier slice matching Miki Nakano1, Osamu Miyashita1, Florence Tama1,2,3 Biophysics and Physicobiology 16: 367-376, 2019. |
Combination of coarse-grained molecular dynamics simulations and small-angle X-ray scattering experiments Toru Ekimoto1, Yuichi Kokabu2, Tomotaka Oroguchi1,3, Mitsunori Ikeguchi1,4 Biophysics and Physicobiology 16: 377-390, 2019. |
Detection of cave pockets in large molecules : Spaces into which internal probes can enter, but external probes from outside cannot Takeshi Kawabata Biophysics and Physicobiology 16: 391-406, 2019. |
Analysis of molecular dynamics simulations of 10-residue peptide, chignolin, using statistical mechanics : Relaxation mode analysis and three-dimensional reference interaction site model theory Yutaka Maruyama1, Hiroshi Takano2, Ayori Mitsutake3 Biophysics and Physicobiology 16: 407-429, 2019. |
Characterization of X-ray diffraction intensity function from a biological molecule for single particle imaging Atsushi Tokuhisa1,2,3 Biophysics and Physicobiology 16: 430-443, 2019. |
On the use of algebraic topology concepts to check the consistency of genome assembly Jean-Francois Gibrat Biophysics and Physicobiology 16: 444-451, 2019. |
Mutational effects of Cys113 on structural dynamics of Pin1 Teikichi Ikura1, Yasushige Yonezawa2, Nobutoshi Ito1 Biophysics and Physicobiology 16: 452-465, 2019. |
Polymer brush in articular cartilage lubrication : Nanoscale modelling and simulation Nobuhiko Kajinami, Mitsuhiro Matsumoto Biophysics and Physicobiology 16: 466-472, 2019. |
Molecular dynamics simulations and linear response theories jointly describe biphasic responses of myoglobin relaxation and reveal evolutionarily conserved frequent communicators Bang-Chieh Huang1, Lee-Wei Yang1,2,3,4 Biophysics and Physicobiology 16: 473-484, 2019. |
A tool written in Scala for preparation and analysis in MD simulation and 3D-RISM calculation of biomolecules Itaru Onishi, Hiroto Tsuji, Masayuki Irisa Biophysics and Physicobiology 16: 485-489, 2019. |
Bohr equation and the lost allosteric Bohr effects in symmetry Lihsin Lee Biophysics and Physicobiology 16: 490-503, 2019. |