메뉴 건너뛰기




Volumn 10, Issue 10, 2014, Pages

Energy Landscape of All-Atom Protein-Protein Interactions Revealed by Multiscale Enhanced Sampling

Author keywords

[No Author keywords available]

Indexed keywords

ASSOCIATION REACTIONS; DISSOCIATION; MOLECULAR INTERACTIONS; MOLECULAR STRUCTURE; PROTEINS;

EID: 84908334314     PISSN: 1553734X     EISSN: 15537358     Source Type: Journal    
DOI: 10.1371/journal.pcbi.1003901     Document Type: Article
Times cited : (14)

References (70)
  • 1
    • 0029421048 scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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
  • 10
    • 0037416207 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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
  • 13
    • 68149168020 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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
  • 25
    • 34447101383 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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
  • 34
    • 36549005182 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고
    • 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 scopus 로고
    • 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 scopus 로고
    • 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 scopus 로고
    • 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 scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고
    • 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 scopus 로고
    • 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
  • 62
    • 0034294024 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고    scopus 로고
    • 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 scopus 로고
    • 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
  • 68
    • 33846823909 scopus 로고
    • 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 scopus 로고
    • 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


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.