Yuji Sugita
Title
Cited by
Cited by
Year
Replica-exchange molecular dynamics method for protein folding
Y Sugita, Y Okamoto
Chemical physics letters 314 (1-2), 141-151, 1999
42141999
Generalized‐ensemble algorithms for molecular simulations of biopolymers
A Mitsutake, Y Sugita, Y Okamoto
Peptide Science: Original Research on Biomolecules 60 (2), 96-123, 2001
9082001
Multidimensional replica-exchange method for free-energy calculations
Y Sugita, A Kitao, Y Okamoto
The Journal of Chemical Physics 113 (15), 6042-6051, 2000
8232000
Replica-exchange multicanonical algorithm and multicanonical replica-exchange method for simulating systems with rough energy landscape
Y Sugita, Y Okamoto
Chemical Physics Letters 329 (3-4), 261-270, 2000
3472000
Structural role of countertransport revealed in Ca2+ pump crystal structure in the absence of Ca2+
K Obara, N Miyashita, C Xu, I Toyoshima, Y Sugita, G Inesi, C Toyoshima
Proceedings of the National Academy of Sciences 102 (41), 14489-14496, 2005
2762005
Conformational transition of Sec machinery inferred from bacterial SecYE structures
T Tsukazaki, H Mori, S Fukai, R Ishitani, T Mori, N Dohmae, A Perederina, ...
Nature 455 (7215), 988-991, 2008
2572008
Modeling of the inhibitory interaction of phospholamban with the Ca2+ ATPase
C Toyoshima, M Asahi, Y Sugita, R Khanna, T Tsuda, DH MacLennan
Proceedings of the National Academy of Sciences 100 (2), 467-472, 2003
2282003
Biomolecular interactions modulate macromolecular structure and dynamics in atomistic model of a bacterial cytoplasm
I Yu, T Mori, T Ando, R Harada, J Jung, Y Sugita, M Feig
Elife 5, e19274, 2016
1892016
Crystal structure of α5β1 integrin ectodomain: Atomic details of the fibronectin receptor
M Nagae, S Re, E Mihara, T Nogi, Y Sugita, J Takagi
Journal of Cell Biology 197 (1), 131-140, 2012
1822012
Structural basis of Sec-independent membrane protein insertion by YidC
K Kumazaki, S Chiba, M Takemoto, A Furukawa, K Nishiyama, Y Sugano, ...
Nature 509 (7501), 516-520, 2014
1762014
Comparisons of force fields for proteins by generalized-ensemble simulations
T Yoda, Y Sugita, Y Okamoto
Chemical Physics Letters 386 (4-6), 460-467, 2004
1742004
Structural basis for dynamic mechanism of proton-coupled symport by the peptide transporter POT
S Doki, HE Kato, N Solcan, M Iwaki, M Koyama, M Hattori, N Iwase, ...
Proceedings of the National Academy of Sciences 110 (28), 11343-11348, 2013
1662013
Protein crowding affects hydration structure and dynamics
R Harada, Y Sugita, M Feig
Journal of the American Chemical Society 134 (10), 4842-4849, 2012
1652012
Sarcolipin regulates sarco (endo) plasmic reticulum Ca2+-ATPase (SERCA) by binding to transmembrane helices alone or in association with phospholamban
M Asahi, Y Sugita, K Kurzydlowski, S De Leon, M Tada, C Toyoshima, ...
Proceedings of the National Academy of Sciences 100 (9), 5040-5045, 2003
1632003
Replica-exchange multicanonical and multicanonical replica-exchange Monte Carlo simulations of peptides. I. Formulation and benchmark test
A Mitsutake, Y Sugita, Y Okamoto
The Journal of chemical physics 118 (14), 6664-6675, 2003
1632003
Reduced native state stability in crowded cellular environment due to protein–protein interactions
R Harada, N Tochio, T Kigawa, Y Sugita, M Feig
Journal of the American Chemical Society 135 (9), 3696-3701, 2013
1142013
Variable interactions between protein crowders and biomolecular solutes are important in understanding cellular crowding
M Feig, Y Sugita
The Journal of Physical Chemistry B 116 (1), 599-605, 2012
1132012
Crystal structure of quinol-dependent nitric oxide reductase from Geobacillus stearothermophilus
Y Matsumoto, T Tosha, AV Pisliakov, T Hino, H Sugimoto, S Nagano, ...
Nature structural & molecular biology 19 (2), 238, 2012
1112012
Secondary-structure preferences of force fields for proteins evaluated by generalized-ensemble simulations
T Yoda, Y Sugita, Y Okamoto
Chemical physics 307 (2-3), 269-283, 2004
1092004
Replica-exchange multicanonical and multicanonical replica-exchange Monte Carlo simulations of peptides. II. Application to a more complex system
A Mitsutake, Y Sugita, Y Okamoto
The Journal of chemical physics 118 (14), 6676-6688, 2003
982003
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Articles 1–20