-
1
-
-
0029421048
-
Protein-protein recognition
-
Janin J, (1995) Protein-protein recognition. Prog Biophys Mol Biol 64: 145–166.
-
(1995)
Prog Biophys Mol Biol
, vol.64
, pp. 145-166
-
-
Janin, J.1
-
2
-
-
0031297461
-
Specific versus non-specific contacts in protein crystals
-
Janin J, (1997) Specific versus non-specific contacts in protein crystals. Nat Struct Biol 4: 973–974.
-
(1997)
Nat Struct Biol
, vol.4
, pp. 973-974
-
-
Janin, J.1
-
3
-
-
0032054612
-
Theory of biomolecular recognition
-
McCammon JA, (1998) Theory of biomolecular recognition. Curr Opin Struct Biol 8: 245–249.
-
(1998)
Curr Opin Struct Biol
, vol.8
, pp. 245-249
-
-
McCammon, J.A.1
-
4
-
-
0026320866
-
The energy landscapes and motions of proteins
-
Frauenfelder H, Sligar SG, Wolynes PG, (1991) The energy landscapes and motions of proteins. Science 254: 1598–1603.
-
(1991)
Science
, vol.254
, pp. 1598-1603
-
-
Frauenfelder, H.1
Sligar, S.G.2
Wolynes, P.G.3
-
6
-
-
78149495375
-
From protein folding to protein function and biomolecular binding by energy landscape theory
-
Schug A, Onuchic JN, (2010) From protein folding to protein function and biomolecular binding by energy landscape theory. Curr Opin Pharmacol 10: 709–714.
-
(2010)
Curr Opin Pharmacol
, vol.10
, pp. 709-714
-
-
Schug, A.1
Onuchic, J.N.2
-
7
-
-
0033056708
-
Folding funnels, binding funnels, and protein function
-
Tsai CJ, Kumar S, Ma B, Nussinov R, (1999) Folding funnels, binding funnels, and protein function. Protein Sci 8: 1181–1190.
-
(1999)
Protein Sci
, vol.8
, pp. 1181-1190
-
-
Tsai, C.J.1
Kumar, S.2
Ma, B.3
Nussinov, R.4
-
8
-
-
0038266221
-
Energy landscape theory, funnels, specificity, and optimal criterion of biomolecular binding
-
Wang J, Verkhivker GM, (2003) Energy landscape theory, funnels, specificity, and optimal criterion of biomolecular binding. Phys Rev Lett 90: 188101.
-
(2003)
Phys Rev Lett
, vol.90
, pp. 188101
-
-
Wang, J.1
Verkhivker, G.M.2
-
9
-
-
0037435022
-
Protein analysis on a proteomic scale
-
Phizicky E, Bastiaens PIH, Zhu H, Snyder M, Fields S, (2003) Protein analysis on a proteomic scale. Nature 422: 208–215.
-
(2003)
Nature
, vol.422
, pp. 208-215
-
-
Phizicky, E.1
Bastiaens, P.I.H.2
Zhu, H.3
Snyder, M.4
Fields, S.5
-
10
-
-
0037416207
-
Fluorescence resonance energy transfer (FRET) microscopy imaging of live cell protein localizations
-
Sekar RB, Periasamy A, (2003) Fluorescence resonance energy transfer (FRET) microscopy imaging of live cell protein localizations. J Cell Biol 160: 629–633.
-
(2003)
J Cell Biol
, vol.160
, pp. 629-633
-
-
Sekar, R.B.1
Periasamy, A.2
-
11
-
-
0000364502
-
Atomic force microscopic study of specific antigen/antibody binding
-
BrowningKelley ME, WaduMesthrige K, Hari V, Liu GY, (1997) Atomic force microscopic study of specific antigen/antibody binding. Langmuir 13: 343–350.
-
(1997)
Langmuir
, vol.13
, pp. 343-350
-
-
Browningkelley, M.E.1
Wadumesthrige, K.2
Hari, V.3
Liu, G.Y.4
-
12
-
-
0034636032
-
Cadherin interaction probed by atomic force microscopy
-
Baumgartner W, Hinterdorfer P, Ness W, Raab A, Vestweber D, et al. (2000) Cadherin interaction probed by atomic force microscopy. Proc Natl Acad Sci USA 97: 4005–4010.
-
(2000)
Proc Natl Acad Sci USA
, vol.97
, pp. 4005-4010
-
-
Baumgartner, W.1
Hinterdorfer, P.2
Ness, W.3
Raab, A.4
Vestweber, D.5
-
13
-
-
68149168020
-
Characterizing the Initial Encounter Complex in Cadherin Adhesion
-
Sivasankar S, Zhang YX, Nelson WJ, Chu S, (2009) Characterizing the Initial Encounter Complex in Cadherin Adhesion. Structure 17: 1075–1081.
-
(2009)
Structure
, vol.17
, pp. 1075-1081
-
-
Sivasankar, S.1
Zhang, Y.X.2
Nelson, W.J.3
Chu, S.4
-
14
-
-
0033543736
-
NMR analysis of the binding of a rhodanese peptide to a minichaperone in solution
-
Kobayashi N, Freund SMV, Chatellier J, Zahn R, Fersht AR, (1999) NMR analysis of the binding of a rhodanese peptide to a minichaperone in solution. J Mol Biol 292: 181–190.
-
(1999)
J Mol Biol
, vol.292
, pp. 181-190
-
-
Kobayashi, N.1
Freund, S.M.V.2
Chatellier, J.3
Zahn, R.4
Fersht, A.R.5
-
15
-
-
29544446689
-
Weak protein-protein interactions as probed by NMR spectroscopy
-
Vaynberg J, Qin J, (2006) Weak protein-protein interactions as probed by NMR spectroscopy. Trends Biotech 24: 22–27.
-
(2006)
Trends Biotech
, vol.24
, pp. 22-27
-
-
Vaynberg, J.1
Qin, J.2
-
16
-
-
0037533875
-
EDTA-derivatized deoxythymidine as a tool for rapid determination of protein binding polarity to DNA by intermolecular paramagnetic relaxation enhancement
-
Iwahara J, Anderson DE, Murphy EC, Clore GM, (2003) EDTA-derivatized deoxythymidine as a tool for rapid determination of protein binding polarity to DNA by intermolecular paramagnetic relaxation enhancement. J Am Chem Soc 125: 6634–6635.
-
(2003)
J Am Chem Soc
, vol.125
, pp. 6634-6635
-
-
Iwahara, J.1
Anderson, D.E.2
Murphy, E.C.3
Clore, G.M.4
-
17
-
-
33646356250
-
Detecting transient intermediates in macromolecular binding by paramagnetic NMR
-
Iwahara J, Clore GM, (2006) Detecting transient intermediates in macromolecular binding by paramagnetic NMR. Nature 440: 1227–1230.
-
(2006)
Nature
, vol.440
, pp. 1227-1230
-
-
Iwahara, J.1
Clore, G.M.2
-
18
-
-
34250838027
-
Solution structure and dynamics of the complex between cytochrome c and cytochrome c peroxidase determined by paramagnetic NMR
-
Volkov AN, Worrall JAR, Holtzmann E, Ubbink M, (2006) Solution structure and dynamics of the complex between cytochrome c and cytochrome c peroxidase determined by paramagnetic NMR. Proc Natl Acad Sci USA 103: 18945–18950.
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 18945-18950
-
-
Volkov, A.N.1
Worrall, J.A.R.2
Holtzmann, E.3
Ubbink, M.4
-
19
-
-
0030891436
-
Simulation of the diffusional association of barnase and barstar
-
Gabdoulline RR, Wade RC, (1997) Simulation of the diffusional association of barnase and barstar. Biophys J 72: 1917–1929.
-
(1997)
Biophys J
, vol.72
, pp. 1917-1929
-
-
Gabdoulline, R.R.1
Wade, R.C.2
-
20
-
-
0031714012
-
Brownian dynamics simulation of protein-protein diffusional encounter
-
Gabdoulline RR, Wade RC, (1998) Brownian dynamics simulation of protein-protein diffusional encounter. Methods 14: 329–341.
-
(1998)
Methods
, vol.14
, pp. 329-341
-
-
Gabdoulline, R.R.1
Wade, R.C.2
-
21
-
-
0035281357
-
Computer simulation of protein-protein interactions
-
Elcock AH, Sept D, McCammon JA, (2001) Computer simulation of protein-protein interactions. J Phys Chem B 105: 1504–1518.
-
(2001)
J Phys Chem B
, vol.105
, pp. 1504-1518
-
-
Elcock, A.H.1
Sept, D.2
McCammon, J.A.3
-
22
-
-
0035830963
-
Protein-protein association: Investigation of factors influencing association rates by Brownian dynamics simulations
-
Gabdoulline RR, Wade RC, (2001) Protein-protein association: Investigation of factors influencing association rates by Brownian dynamics simulations. J Mol Biol 306: 1139–1155.
-
(2001)
J Mol Biol
, vol.306
, pp. 1139-1155
-
-
Gabdoulline, R.R.1
Wade, R.C.2
-
23
-
-
4444301075
-
How optimal are the binding energetics of barnase and barstar?
-
Wang T, Tomic S, Gabdoulline RR, Wade RC, (2004) How optimal are the binding energetics of barnase and barstar? Biophys J 87: 1618–1630.
-
(2004)
Biophys J
, vol.87
, pp. 1618-1630
-
-
Wang, T.1
Tomic, S.2
Gabdoulline, R.R.3
Wade, R.C.4
-
24
-
-
33646005543
-
Diffusional encounter of barnase and barstar
-
Spaar A, Dammer C, Gabdoulline RR, Wade RC, Helms V, (2006) Diffusional encounter of barnase and barstar. Biophys J 90: 1913–1924.
-
(2006)
Biophys J
, vol.90
, pp. 1913-1924
-
-
Spaar, A.1
Dammer, C.2
Gabdoulline, R.R.3
Wade, R.C.4
Helms, V.5
-
25
-
-
34447101383
-
On the dynamic nature of the transition state for protein-protein association as determined by double-mutant cycle analysis and simulation
-
Harel M, Cohen M, Schreiber G, (2007) On the dynamic nature of the transition state for protein-protein association as determined by double-mutant cycle analysis and simulation. J Mol Biol 371: 180–196.
-
(2007)
J Mol Biol
, vol.371
, pp. 180-196
-
-
Harel, M.1
Cohen, M.2
Schreiber, G.3
-
26
-
-
70350023195
-
The Effect of Different Force Applications on the Protein-Protein Complex Barnase-Barstar
-
Neumann J, Gottschalk KE, (2009) The Effect of Different Force Applications on the Protein-Protein Complex Barnase-Barstar. Biophys J 97: 1687–1699.
-
(2009)
Biophys J
, vol.97
, pp. 1687-1699
-
-
Neumann, J.1
Gottschalk, K.E.2
-
27
-
-
77953621551
-
Barnase-Barstar: From first encounter to final complex
-
Hoefling M, Gottschalk KE, (2010) Barnase-Barstar: From first encounter to final complex. J Struct Biol 171: 52–63.
-
(2010)
J Struct Biol
, vol.171
, pp. 52-63
-
-
Hoefling, M.1
Gottschalk, K.E.2
-
28
-
-
77956154559
-
Downhill binding energy surface of the barnase-barstar complex
-
Wang L, Siu SW, Gu W, Helms V, (2010) Downhill binding energy surface of the barnase-barstar complex. Biopolymers 93: 977–985.
-
(2010)
Biopolymers
, vol.93
, pp. 977-985
-
-
Wang, L.1
Siu, S.W.2
Gu, W.3
Helms, V.4
-
29
-
-
78650341784
-
Scalable free energy calculation of proteins via multiscale essential sampling
-
Moritsugu K, Terada T, Kidera A, (2010) Scalable free energy calculation of proteins via multiscale essential sampling. J Chem Phys 133: 224105.
-
(2010)
J Chem Phys
, vol.133
, pp. 224105
-
-
Moritsugu, K.1
Terada, T.2
Kidera, A.3
-
30
-
-
84860324033
-
Disorder-to-order transition of an intrinsically disordered region of sortase revealed by multiscale enhanced sampling
-
Moritsugu K, Terada T, Kidera A, (2012) Disorder-to-order transition of an intrinsically disordered region of sortase revealed by multiscale enhanced sampling. J Am Chem Soc 134: 7094–7101.
-
(2012)
J Am Chem Soc
, vol.134
, pp. 7094-7101
-
-
Moritsugu, K.1
Terada, T.2
Kidera, A.3
-
32
-
-
33746606875
-
The multiscale challenge for biomolecular systems: coarse-grained modeling
-
Chu JW, Izvekov S, Voth GA, (2006) The multiscale challenge for biomolecular systems: coarse-grained modeling. Mol Simul 32: 211–218.
-
(2006)
Mol Simul
, vol.32
, pp. 211-218
-
-
Chu, J.W.1
Izvekov, S.2
Voth, G.A.3
-
33
-
-
34547474332
-
The MARTINI force field: Coarse grained model for biomolecular simulations
-
Marrink SJ, Risselada HJ, Yefimov S, Tieleman DP, de Vries AH, (2007) The MARTINI force field: Coarse grained model for biomolecular simulations. J Phys Chem B 111: 7812–7824.
-
(2007)
J Phys Chem B
, vol.111
, pp. 7812-7824
-
-
Marrink, S.J.1
Risselada, H.J.2
Yefimov, S.3
Tieleman, D.P.4
De Vries, A.H.5
-
34
-
-
36549005182
-
Coarse-grained Biomolecular simulation with REACH: Realistic extension algorithm via covariance hessian
-
Moritsugu K, Smith JC, (2007) Coarse-grained Biomolecular simulation with REACH: Realistic extension algorithm via covariance hessian. Biophys J 93: 3460–3469.
-
(2007)
Biophys J
, vol.93
, pp. 3460-3469
-
-
Moritsugu, K.1
Smith, J.C.2
-
35
-
-
39149100599
-
Coarse-grained models of protein folding: toy models or predictive tools?
-
Clementi C, (2008) Coarse-grained models of protein folding: toy models or predictive tools? Curr Opin Struct Biol 18: 10–15.
-
(2008)
Curr Opin Struct Biol
, vol.18
, pp. 10-15
-
-
Clementi, C.1
-
36
-
-
63449129633
-
Insights from Coarse-Grained Go Models for Protein Folding and Dynamics
-
Hills RD, Brooks CL, (2009) Insights from Coarse-Grained Go Models for Protein Folding and Dynamics. Int J Mol Sci 10: 889–905.
-
(2009)
Int J Mol Sci
, vol.10
, pp. 889-905
-
-
Hills, R.D.1
Brooks, C.L.2
-
37
-
-
79951676668
-
Minimalist models for proteins: a comparative analysis
-
Tozzini V, (2010) Minimalist models for proteins: a comparative analysis. Quart Rev Biophys 43: 333–371.
-
(2010)
Quart Rev Biophys
, vol.43
, pp. 333-371
-
-
Tozzini, V.1
-
38
-
-
84861773417
-
Coarse-grained molecular simulations of large biomolecules
-
Takada S, (2012) Coarse-grained molecular simulations of large biomolecules. Curr Opin Struct Biol 22: 130–137.
-
(2012)
Curr Opin Struct Biol
, vol.22
, pp. 130-137
-
-
Takada, S.1
-
40
-
-
33847717840
-
Smart resolution replica exchange: an efficient algorithm for exploring complex energy landscapes
-
Liu P, Voth GA, (2007) Smart resolution replica exchange: an efficient algorithm for exploring complex energy landscapes. J Chem Phys 126: 045106.
-
(2007)
J Chem Phys
, vol.126
, pp. 045106
-
-
Liu, P.1
Voth, G.A.2
-
41
-
-
0037085922
-
On the use of the adiabatic molecular dynamics technique in the calculation of free energy profiles
-
Rosso L, Mináry P, Zhu Z, Tuckerman ME, (2002) On the use of the adiabatic molecular dynamics technique in the calculation of free energy profiles. J Chem Phys 116: 4389.
-
(2002)
J Chem Phys
, vol.116
, pp. 4389
-
-
Rosso, L.1
Mináry, P.2
Zhu, Z.3
Tuckerman, M.E.4
-
42
-
-
58149157751
-
Efficient and Direct Generation of Multidimensional Free Energy Surfaces via Adiabatic Dynamics without Coordinate Transformations
-
Abrams JB, Tuckerman ME, (2008) Efficient and Direct Generation of Multidimensional Free Energy Surfaces via Adiabatic Dynamics without Coordinate Transformations. J Phys Chem B 112: 15742–15757.
-
(2008)
J Phys Chem B
, vol.112
, pp. 15742-15757
-
-
Abrams, J.B.1
Tuckerman, M.E.2
-
43
-
-
33745762636
-
A temperature accelerated method for sampling free energy and determining reaction pathways in rare events simulations
-
Maragliano L, Vanden-Eijnden E, (2006) A temperature accelerated method for sampling free energy and determining reaction pathways in rare events simulations. Chem Phys Lett 426: 168–175.
-
(2006)
Chem Phys Lett
, vol.426
, pp. 168-175
-
-
Maragliano, L.1
Vanden-Eijnden, E.2
-
44
-
-
77950448255
-
Large-scale conformational sampling of proteins using temperature-accelerated molecular dynamics
-
Abrams CF, Vanden-Eijnden E, (2010) Large-scale conformational sampling of proteins using temperature-accelerated molecular dynamics. Proc Natl Acad Sci USA 107: 4961–4966.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 4961-4966
-
-
Abrams, C.F.1
Vanden-Eijnden, E.2
-
45
-
-
84867395056
-
Temperature-Accelerated Sampling and Amplified Collective Motion with Adiabatic Reweighting to Obtain Canonical Distributions and Ensemble Averages
-
Hu Y, Hong W, Shi Y, Liu H, (2012) Temperature-Accelerated Sampling and Amplified Collective Motion with Adiabatic Reweighting to Obtain Canonical Distributions and Ensemble Averages. J Chem Theor Comput 8: 3777–3792.
-
(2012)
J Chem Theor Comput
, vol.8
, pp. 3777-3792
-
-
Hu, Y.1
Hong, W.2
Shi, Y.3
Liu, H.4
-
46
-
-
84886941989
-
MuSTAR MD: Multi-scale sampling using temperature accelerated and replica exchange molecular dynamics
-
Yamamori Y, Kitao A, (2013) MuSTAR MD: Multi-scale sampling using temperature accelerated and replica exchange molecular dynamics. J Chem Phys 139: 145105.
-
(2013)
J Chem Phys
, vol.139
, pp. 145105
-
-
Yamamori, Y.1
Kitao, A.2
-
47
-
-
0024453699
-
Barnase and barstar: two small proteins to fold and fit together
-
Hartley RW, (1989) Barnase and barstar: two small proteins to fold and fit together. Trends Biochem Sci 14: 450–454.
-
(1989)
Trends Biochem Sci
, vol.14
, pp. 450-454
-
-
Hartley, R.W.1
-
48
-
-
0027132431
-
Recognition between a Bacterial Ribonuclease, Barnase, and Its Natural Inhibitor, Barstar
-
Guillet V, Lapthorn A, Hartley RW, Mauguen Y, (1993) Recognition between a Bacterial Ribonuclease, Barnase, and Its Natural Inhibitor, Barstar. Structure 1: 165–176.
-
(1993)
Structure
, vol.1
, pp. 165-176
-
-
Guillet, V.1
Lapthorn, A.2
Hartley, R.W.3
Mauguen, Y.4
-
49
-
-
0028287089
-
Subsite Binding in an Rnase - Structure of a Barnase Tetranucleotide Complex at 1.76-Angstrom Resolution
-
Buckle AM, Fersht AR, (1994) Subsite Binding in an Rnase - Structure of a Barnase Tetranucleotide Complex at 1.76-Angstrom Resolution. Biochemistry 33: 1644–1653.
-
(1994)
Biochemistry
, vol.33
, pp. 1644-1653
-
-
Buckle, A.M.1
Fersht, A.R.2
-
50
-
-
0027177102
-
Interaction of Barnase with Its Polypeptide Inhibitor Barstar Studied by Protein Engineering
-
Schreiber G, Fersht AR, (1993) Interaction of Barnase with Its Polypeptide Inhibitor Barstar Studied by Protein Engineering. Biochemistry 32: 5145–5150.
-
(1993)
Biochemistry
, vol.32
, pp. 5145-5150
-
-
Schreiber, G.1
Fersht, A.R.2
-
51
-
-
0029056922
-
Energetics of protein-protein interactions: analysis of the barnase-barstar interface by single mutations and double mutant cycles
-
Schreiber G, Fersht AR, (1995) Energetics of protein-protein interactions: analysis of the barnase-barstar interface by single mutations and double mutant cycles. J Mol Biol 248: 478–486.
-
(1995)
J Mol Biol
, vol.248
, pp. 478-486
-
-
Schreiber, G.1
Fersht, A.R.2
-
52
-
-
0029873697
-
Rapid, electrostatically assisted association of proteins
-
Schreiber G, Fersht AR, (1996) Rapid, electrostatically assisted association of proteins. Nat Struct Biol 3: 427–431.
-
(1996)
Nat Struct Biol
, vol.3
, pp. 427-431
-
-
Schreiber, G.1
Fersht, A.R.2
-
53
-
-
0035917323
-
Experimental assignment of the structure of the transition state for the association of barnase and barstar
-
Frisch C, Fersht AR, Schreiber G, (2001) Experimental assignment of the structure of the transition state for the association of barnase and barstar. J Mol Biol 308: 69–77.
-
(2001)
J Mol Biol
, vol.308
, pp. 69-77
-
-
Frisch, C.1
Fersht, A.R.2
Schreiber, G.3
-
54
-
-
44349192157
-
Crystal structural analysis of protein-protein interactions drastically destabilized by a single mutation
-
Urakubo Y, Ikura T, Ito N, (2008) Crystal structural analysis of protein-protein interactions drastically destabilized by a single mutation. Protein Sci 17: 1055–1065.
-
(2008)
Protein Sci
, vol.17
, pp. 1055-1065
-
-
Urakubo, Y.1
Ikura, T.2
Ito, N.3
-
55
-
-
0020972782
-
Theoretical studies of protein folding
-
Go N, (1983) Theoretical studies of protein folding. Annu Rev Biophys Bioeng 12: 183–210.
-
(1983)
Annu Rev Biophys Bioeng
, vol.12
, pp. 183-210
-
-
Go, N.1
-
57
-
-
84869761071
-
The Protein-Folding Problem, 50 Years On
-
Dill KA, MacCallum JL, (2012) The Protein-Folding Problem, 50 Years On. Science 338: 1042–1046.
-
(2012)
Science
, vol.338
, pp. 1042-1046
-
-
Dill, K.A.1
Maccallum, J.L.2
-
58
-
-
0027318108
-
Directed Mutagenesis and Barnase-Barstar Recognition
-
Hartley RW, (1993) Directed Mutagenesis and Barnase-Barstar Recognition. Biochemistry 32: 5978–5984.
-
(1993)
Biochemistry
, vol.32
, pp. 5978-5984
-
-
Hartley, R.W.1
-
59
-
-
0028774340
-
Stability and Function - 2 Constraints in the Evolution of Barstar and Other Proteins
-
Schreiber C, Buckle AM, Fersht AR, (1994) Stability and Function - 2 Constraints in the Evolution of Barstar and Other Proteins. Structure 2: 945–951.
-
(1994)
Structure
, vol.2
, pp. 945-951
-
-
Schreiber, C.1
Buckle, A.M.2
Fersht, A.R.3
-
61
-
-
80055081145
-
How Fast-Folding Proteins Fold
-
Lindorff-Larsen K, Piana S, Dror RO, Shaw DE, (2011) How Fast-Folding Proteins Fold. Science 334: 517–520.
-
(2011)
Science
, vol.334
, pp. 517-520
-
-
Lindorff-Larsen, K.1
Piana, S.2
Dror, R.O.3
Shaw, D.E.4
-
62
-
-
0034294024
-
Multidimensional replica-exchange method for free-energy calculations
-
Sugita Y, Kitao A, Okamoto Y, (2000) Multidimensional replica-exchange method for free-energy calculations. J Chem Phys 113: 6042–6051.
-
(2000)
J Chem Phys
, vol.113
, pp. 6042-6051
-
-
Sugita, Y.1
Kitao, A.2
Okamoto, Y.3
-
63
-
-
0037157317
-
On the Hamiltonian replica exchange method for efficient sampling of biomolecular systems: Application to protein structure prediction
-
Fukunishi H, Watanabe O, Takada S, (2002) On the Hamiltonian replica exchange method for efficient sampling of biomolecular systems: Application to protein structure prediction. J Chem Phys 116: 9058–9067.
-
(2002)
J Chem Phys
, vol.116
, pp. 9058-9067
-
-
Fukunishi, H.1
Watanabe, O.2
Takada, S.3
-
64
-
-
77953513118
-
Improved side-chain torsion potentials for the Amber ff99SB protein force field
-
Lindorff-Larsen K, Piana S, Palmo K, Maragakis P, Klepeis JL, et al. (2010) Improved side-chain torsion potentials for the Amber ff99SB protein force field. Proteins 78: 1950–1958.
-
(2010)
Proteins
, vol.78
, pp. 1950-1958
-
-
Lindorff-Larsen, K.1
Piana, S.2
Palmo, K.3
Maragakis, P.4
Klepeis, J.L.5
-
65
-
-
0000197372
-
Large amplitude elastic motions in proteins from a single-parameter, atomic analysis
-
Tirion MM, (1996) Large amplitude elastic motions in proteins from a single-parameter, atomic analysis. Phys Rev Lett 77: 1905–1908.
-
(1996)
Phys Rev Lett
, vol.77
, pp. 1905-1908
-
-
Tirion, M.M.1
-
66
-
-
0004016501
-
Comparison of simple potential functions for simulating liquid water
-
Jorgensen WD, (1983) Comparison of simple potential functions for simulating liquid water. J Chem Phys 79: 926–935.
-
(1983)
J Chem Phys
, vol.79
, pp. 926-935
-
-
Jorgensen, W.D.1
-
67
-
-
0002334742
-
The electric potential of a macromolecule in a solvent: a fundamental approach
-
Juffer AH, Botta EFF, Vankeulen BAM, Vanderploeg A, Berendsen HJC, (1991) The electric potential of a macromolecule in a solvent: a fundamental approach. J Comp Phys 97: 144–171.
-
(1991)
J Comp Phys
, vol.97
, pp. 144-171
-
-
Juffer, A.H.1
Botta, E.F.F.2
Vankeulen, B.A.M.3
Vanderploeg, A.4
Berendsen, H.J.C.5
-
68
-
-
33846823909
-
Particle Mesh Ewald - an N.Log(N) Method for Ewald Sums in Large Systems
-
Darden T, York D, Pedersen L, (1993) Particle Mesh Ewald - an N.Log(N) Method for Ewald Sums in Large Systems. J Chem Phys 98: 10089–10092.
-
(1993)
J Chem Phys
, vol.98
, pp. 10089-10092
-
-
Darden, T.1
York, D.2
Pedersen, L.3
-
69
-
-
33646940952
-
Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes
-
Ryckaert JP, Ciccotti G, Berendsen HJC, (1977) Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes. J Comput Phys 23: 327–341.
-
(1977)
J Comput Phys
, vol.23
, pp. 327-341
-
-
Ryckaert, J.P.1
Ciccotti, G.2
Berendsen, H.J.C.3
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