메뉴 건너뛰기




Volumn 117, Issue 29, 2013, Pages 6015-6023

Predicting mutation-induced stark shifts in the active site of a protein with a polarized force field

Author keywords

[No Author keywords available]

Indexed keywords

ACCURATE PREDICTION; ELECTRIC FIELD SHIFTS; ELECTRONIC POLARIZATION EFFECT; EXPERIMENTAL DEVELOPMENT; MOLECULAR DYNAMICS SIMULATIONS; PROTEIN STRUCTURES; STRETCHING VIBRATIONS; VIBRATIONAL FREQUENCY SHIFT;

EID: 84880825906     PISSN: 10895639     EISSN: 15205215     Source Type: Journal    
DOI: 10.1021/jp312063h     Document Type: Article
Times cited : (23)

References (61)
  • 1
    • 4243463817 scopus 로고
    • Electrostatics in Biomolecular Structure and Dynamics
    • Davis, M. E.; McCammon, J. A. Electrostatics in Biomolecular Structure and Dynamics Chem. Rev. 1990, 90, 509-521
    • (1990) Chem. Rev. , vol.90 , pp. 509-521
    • Davis, M.E.1    McCammon, J.A.2
  • 2
    • 0029016182 scopus 로고
    • Classical Electrostatics in Biology and Chemistry
    • Honig, B.; Nicholls, A. Classical Electrostatics in Biology and Chemistry Science 1995, 268, 1144-1149
    • (1995) Science , vol.268 , pp. 1144-1149
    • Honig, B.1    Nicholls, A.2
  • 4
    • 0018094892 scopus 로고
    • Electrostatic Effects in Proteins
    • Perutz, M. F. Electrostatic Effects in Proteins Science 1978, 201, 1187-1191
    • (1978) Science , vol.201 , pp. 1187-1191
    • Perutz, M.F.1
  • 5
    • 0021476470 scopus 로고
    • Calculations of Electrostatic Interactions in Biological Systems and in Solutions
    • Warshel, A.; Russell, S. T. Calculations of Electrostatic Interactions in Biological Systems and in Solutions Q. Rev. Biophys. 1984, 17, 283-422
    • (1984) Q. Rev. Biophys. , vol.17 , pp. 283-422
    • Warshel, A.1    Russell, S.T.2
  • 6
    • 0031561292 scopus 로고    scopus 로고
    • Continuum Treatment of Long-Range Interactions in Free Energy Calculations. Application to Protein-Ligand Binding
    • Simonson, T.; Archontis, G.; Karplus, M. Continuum Treatment of Long-Range Interactions in Free Energy Calculations. Application to Protein-Ligand Binding J. Phys. Chem. B 1997, 101, 8349-8362
    • (1997) J. Phys. Chem. B , vol.101 , pp. 8349-8362
    • Simonson, T.1    Archontis, G.2    Karplus, M.3
  • 7
    • 0035107570 scopus 로고    scopus 로고
    • Optimization of Binding Electrostatics: Charge Complementarity in the Barnase-Barstar Protein Complex
    • Lee, L. P.; Tidor, B. Optimization of Binding Electrostatics: Charge Complementarity in the Barnase-Barstar Protein Complex Protein Sci. 2001, 10, 362-377
    • (2001) Protein Sci. , vol.10 , pp. 362-377
    • Lee, L.P.1    Tidor, B.2
  • 8
    • 0028238239 scopus 로고
    • Dielectric Asymmetry in the Photosynthetic Reaction Center
    • Steffen, M. A.; Lao, K.; Boxer, S. G. Dielectric Asymmetry in the Photosynthetic Reaction Center Science 1994, 264, 810-816
    • (1994) Science , vol.264 , pp. 810-816
    • Steffen, M.A.1    Lao, K.2    Boxer, S.G.3
  • 9
    • 0026718120 scopus 로고
    • Proton Transfer in Reaction Centers from Photosynthetic Bacteria
    • Okamura, M. Y.; Feher, G. Proton Transfer in Reaction Centers from Photosynthetic Bacteria Annu. Rev. Biochem. 1992, 61, 861-896
    • (1992) Annu. Rev. Biochem. , vol.61 , pp. 861-896
    • Okamura, M.Y.1    Feher, G.2
  • 10
    • 0033791659 scopus 로고    scopus 로고
    • Critical Analysis of Antibody Catalysis
    • Hilvert, D. Critical Analysis of Antibody Catalysis Annu. Rev. Biochem. 2000, 69, 751-793
    • (2000) Annu. Rev. Biochem. , vol.69 , pp. 751-793
    • Hilvert, D.1
  • 12
    • 79958083942 scopus 로고    scopus 로고
    • Protein's Electronic Polarization Contributes Significantly to Its Catalytic Function
    • Xiang, Y.; Duan, L.; Zhang, J. Z. Protein's Electronic Polarization Contributes Significantly to Its Catalytic Function J. Chem. Phys. 2011, 134, 205101
    • (2011) J. Chem. Phys. , vol.134 , pp. 205101
    • Xiang, Y.1    Duan, L.2    Zhang, J.Z.3
  • 13
    • 33746017658 scopus 로고    scopus 로고
    • Electric Fields at the Active Site of an Enzyme: Direct Comparison of Experiment with Theory
    • Suydam, I. T.; Snow, C. D.; Pande, V. S.; Boxer, S. G. Electric Fields at the Active Site of an Enzyme: Direct Comparison of Experiment with Theory Science 2006, 313, 200-204
    • (2006) Science , vol.313 , pp. 200-204
    • Suydam, I.T.1    Snow, C.D.2    Pande, V.S.3    Boxer, S.G.4
  • 14
  • 15
    • 0242663237 scopus 로고    scopus 로고
    • A Point-Charge Force Field for Molecular Mechanics Simulations of Proteins Based on Condensed-Phase Quantum Mechanical Calculations
    • Duan, Y.; Wu, C.; Chowdhury, S.; Lee, M. C.; Xiong, G.; Zhang, W.; Yang, R.; Cieplak, P.; Luo, R.; Lee, T. A Point-Charge Force Field for Molecular Mechanics Simulations of Proteins Based on Condensed-Phase Quantum Mechanical Calculations J. Comput. Chem. 2003, 24, 1999-2012
    • (2003) J. Comput. Chem. , vol.24 , pp. 1999-2012
    • Duan, Y.1    Wu, C.2    Chowdhury, S.3    Lee, M.C.4    Xiong, G.5    Zhang, W.6    Yang, R.7    Cieplak, P.8    Luo, R.9    Lee, T.10
  • 16
  • 17
    • 80053392716 scopus 로고    scopus 로고
    • Electrostatic Fields near the Active Site of Human Aldose Reductase: 2. New Inhibitors and Complications Caused by Hydrogen Bonds
    • Xu, L.; Cohen, A. E.; Boxer, S. G. Electrostatic Fields near the Active Site of Human Aldose Reductase: 2. New Inhibitors and Complications Caused by Hydrogen Bonds Biochemistry 2011, 50, 8311-8322
    • (2011) Biochemistry , vol.50 , pp. 8311-8322
    • Xu, L.1    Cohen, A.E.2    Boxer, S.G.3
  • 18
    • 84865092882 scopus 로고    scopus 로고
    • QM/MM Prediction of the Stark Shift in the Active Site of a Protein
    • Sandberg, D. J.; Rudnitskaya, A. N.; Gascón, J. A. QM/MM Prediction of the Stark Shift in the Active Site of a Protein J. Chem. Theory Comput. 2012, 8, 2817-2823
    • (2012) J. Chem. Theory Comput. , vol.8 , pp. 2817-2823
    • Sandberg, D.J.1    Rudnitskaya, A.N.2    Gascón, J.A.3
  • 19
    • 0030624708 scopus 로고    scopus 로고
    • Stark Spectroscopy: Applications in Chemistry, Biology, and Materials Science
    • Bublitz, G. U.; Boxer, S. G. Stark Spectroscopy: Applications in Chemistry, Biology, And Materials Science Annu. Rev. Phys. Chem. 1997, 48, 213-242
    • (1997) Annu. Rev. Phys. Chem. , vol.48 , pp. 213-242
    • Bublitz, G.U.1    Boxer, S.G.2
  • 20
    • 0001023681 scopus 로고
    • Vibrational Stark Spectroscopy. 1. Basic Theory and Application to the CO Stretch
    • Hush, N. S.; Reimers, J. R. Vibrational Stark Spectroscopy. 1. Basic Theory and Application to the CO Stretch J. Phys. Chem. 1995, 99, 15798-15805
    • (1995) J. Phys. Chem. , vol.99 , pp. 15798-15805
    • Hush, N.S.1    Reimers, J.R.2
  • 21
    • 38949205622 scopus 로고    scopus 로고
    • Electrostatic Fields near the Active Site of Human Aldose Reductase: 1. New Inhibitors and Vibrational Stark Effect Measurements
    • Webb, L. J.; Boxer, S. G. Electrostatic Fields near the Active Site of Human Aldose Reductase: 1. New Inhibitors and Vibrational Stark Effect Measurements Biochemistry 2008, 47, 1588-1598
    • (2008) Biochemistry , vol.47 , pp. 1588-1598
    • Webb, L.J.1    Boxer, S.G.2
  • 22
    • 0034499168 scopus 로고    scopus 로고
    • Vibrational Stark Effects of Nitriles I. Methods and Experimental Results
    • Andrews, S. S.; Boxer, S. G. Vibrational Stark Effects of Nitriles I. Methods and Experimental Results J. Phys. Chem. A 2000, 104, 11853-11863
    • (2000) J. Phys. Chem. A , vol.104 , pp. 11853-11863
    • Andrews, S.S.1    Boxer, S.G.2
  • 23
    • 0037165471 scopus 로고    scopus 로고
    • Vibrational Stark Effects of Nitriles II. Physical Origins of Stark Effects from Experiment and Perturbation Models
    • Andrews, S. S.; Boxer, S. G. Vibrational Stark Effects of Nitriles II. Physical Origins of Stark Effects from Experiment and Perturbation Models J. Phys. Chem. A 2002, 106, 469-477
    • (2002) J. Phys. Chem. A , vol.106 , pp. 469-477
    • Andrews, S.S.1    Boxer, S.G.2
  • 24
    • 0001257322 scopus 로고    scopus 로고
    • Vibrational Stark Spectroscopy in Proteins: A Probe and Calibration for Electrostatic Fields
    • Park, E. S.; Andrews, S. S.; Hu, R. B.; Boxer, S. G. Vibrational Stark Spectroscopy in Proteins: A Probe and Calibration for Electrostatic Fields J. Phys. Chem. B 1999, 103, 9813-9817
    • (1999) J. Phys. Chem. B , vol.103 , pp. 9813-9817
    • Park, E.S.1    Andrews, S.S.2    Hu, R.B.3    Boxer, S.G.4
  • 25
    • 0000206030 scopus 로고    scopus 로고
    • Vibrational Stark Spectroscopy. 2. Application to the CN Stretch in HCN and Acetonitrile
    • Reimers, J. R.; Zeng, J.; Hush, N. S. Vibrational Stark Spectroscopy. 2. Application to the CN Stretch in HCN and Acetonitrile J. Phys. Chem. 1996, 100, 1498-1504
    • (1996) J. Phys. Chem. , vol.100 , pp. 1498-1504
    • Reimers, J.R.1    Zeng, J.2    Hush, N.S.3
  • 26
    • 0142072231 scopus 로고    scopus 로고
    • Vibrational Stark Effects Calibrate the Sensitivity of Vibrational Probes for Electric Fields in Proteins
    • Suydam, I. T.; Boxer, S. G. Vibrational Stark Effects Calibrate the Sensitivity of Vibrational Probes for Electric Fields in Proteins Biochemistry 2003, 42, 12050-12055
    • (2003) Biochemistry , vol.42 , pp. 12050-12055
    • Suydam, I.T.1    Boxer, S.G.2
  • 27
    • 79952810959 scopus 로고    scopus 로고
    • Calculation of the Vibrational Stark Effect Using a First-Principles Quantum Mechanical/Molecular Mechanical Approach
    • Ringer, A. L.; MacKerell, A. Calculation of the Vibrational Stark Effect Using a First-Principles Quantum Mechanical/Molecular Mechanical Approach J. Phys. Chem. Lett. 2011, 2, 553-556
    • (2011) J. Phys. Chem. Lett. , vol.2 , pp. 553-556
    • Ringer, A.L.1    Mackerell, A.2
  • 28
    • 48549089425 scopus 로고    scopus 로고
    • Nitrile Groups As Vibrational Probes: Calculations of the CN Infrared Absorption Line Shape of Acetonitrile in Water and Tetrahydrofuran
    • Lindquist, B. A.; Corcelli, S. A. Nitrile Groups As Vibrational Probes: Calculations of the CN Infrared Absorption Line Shape of Acetonitrile in Water and Tetrahydrofuran J. Phys. Chem. B 2008, 112, 6301-6303
    • (2008) J. Phys. Chem. B , vol.112 , pp. 6301-6303
    • Lindquist, B.A.1    Corcelli, S.A.2
  • 29
    • 70349303948 scopus 로고    scopus 로고
    • Nitrile Groups As Vibrational Probes of Biomolecular Structure and Dynamics: An Overview
    • Lindquist, B. A.; Furse, K. E.; Corcelli, S. A. Nitrile Groups As Vibrational Probes of Biomolecular Structure and Dynamics: An Overview Phys. Chem. Chem. Phys. 2009, 11, 8119-8132
    • (2009) Phys. Chem. Chem. Phys. , vol.11 , pp. 8119-8132
    • Lindquist, B.A.1    Furse, K.E.2    Corcelli, S.A.3
  • 30
    • 56349131963 scopus 로고    scopus 로고
    • Optimized Quantum Mechanics/Molecular Mechanics Strategies for Nitrile Vibrational Probes: Acetonitrile and para -Tolunitrile in Water and Tetrahydrofuran
    • Lindquist, B. A.; Haws, R. T.; Corcelli, S. A. Optimized Quantum Mechanics/Molecular Mechanics Strategies for Nitrile Vibrational Probes: Acetonitrile and para -Tolunitrile in Water and Tetrahydrofuran J. Phys. Chem. B 2008, 112, 13991-4001
    • (2008) J. Phys. Chem. B , vol.112 , pp. 13991-14001
    • Lindquist, B.A.1    Haws, R.T.2    Corcelli, S.A.3
  • 31
    • 0037438511 scopus 로고    scopus 로고
    • Using Nitrile-Derivatized Amino Acids As Infrared Probes of Local Environment
    • Getahun, Z.; Huang, C. Y.; Wang, T.; De Leon, B.; DeGrado, W. F.; Gai, F. Using Nitrile-Derivatized Amino Acids As Infrared Probes of Local Environment J. Am. Chem. Soc. 2003, 125, 405-411
    • (2003) J. Am. Chem. Soc. , vol.125 , pp. 405-411
    • Getahun, Z.1    Huang, C.Y.2    Wang, T.3    De Leon, B.4    Degrado, W.F.5    Gai, F.6
  • 32
    • 0037032263 scopus 로고    scopus 로고
    • An Electrostatic Model for the Frequency Shifts in the Carbonmonoxy Stretching Band of Myoglobin: Correlation of Hydrogen Bonding and the Stark Tuning Rate
    • Franzen, S. An Electrostatic Model for the Frequency Shifts in the Carbonmonoxy Stretching Band of Myoglobin: Correlation of Hydrogen Bonding and the Stark Tuning Rate J. Am. Chem. Soc. 2002, 124, 13271-13281
    • (2002) J. Am. Chem. Soc. , vol.124 , pp. 13271-13281
    • Franzen, S.1
  • 33
    • 79955398126 scopus 로고    scopus 로고
    • Vibrational Solvatochromism and Electrochromism of Infrared Probe Molecules Containing Cî-o, Cî -n, C=O, or C - F Vibrational Chromophore
    • Choi, J. H.; Cho, M. Vibrational Solvatochromism and Electrochromism of Infrared Probe Molecules Containing Cî-O, Cî-N, C=O, or C-F Vibrational Chromophore J. Chem. Phys. 2011, 134, 154513
    • (2011) J. Chem. Phys. , vol.134 , pp. 154513
    • Choi, J.H.1    Cho, M.2
  • 34
    • 80055014555 scopus 로고    scopus 로고
    • Direct Measurements of Electric Fields in Weak OH··· π Hydrogen Bonds
    • Saggu, M.; Levinson, N. M.; Boxer, S. G. Direct Measurements of Electric Fields in Weak OH···π Hydrogen Bonds J. Am. Chem. Soc. 2011, 133, 17414-17419
    • (2011) J. Am. Chem. Soc. , vol.133 , pp. 17414-17419
    • Saggu, M.1    Levinson, N.M.2    Boxer, S.G.3
  • 35
    • 84869388609 scopus 로고    scopus 로고
    • Experimental Quantification of Electrostatics in X- H···π Hydrogen Bonds
    • Saggu, M.; Levinson, N. M.; Boxer, S. G. Experimental Quantification of Electrostatics in X-H···π Hydrogen Bonds J. Am. Chem. Soc. 2012, 134, 18986-18997
    • (2012) J. Am. Chem. Soc. , vol.134 , pp. 18986-18997
    • Saggu, M.1    Levinson, N.M.2    Boxer, S.G.3
  • 36
    • 84872576311 scopus 로고    scopus 로고
    • Calculation of Vibrational Shifts of Nitrile Probes in the Active Site of Ketosteroid Isomerase upon Ligand Binding
    • Layfield, J. P.; Hammes-Schiffer, S. Calculation of Vibrational Shifts of Nitrile Probes in the Active Site of Ketosteroid Isomerase upon Ligand Binding J. Am. Chem. Soc. 2013, 135, 717-725
    • (2013) J. Am. Chem. Soc. , vol.135 , pp. 717-725
    • Layfield, J.P.1    Hammes-Schiffer, S.2
  • 37
    • 33645522435 scopus 로고    scopus 로고
    • A Self-Consistent Space-Domain Decomposition Method for QM/MM Computations of Protein Electrostatic Potentials
    • Gascón, J. A.; Leung, S. S. F.; Batista, E. R.; Batista, V. S. A Self-Consistent Space-Domain Decomposition Method for QM/MM Computations of Protein Electrostatic Potentials J. Chem. Theory Comput. 2006, 2, 175-186
    • (2006) J. Chem. Theory Comput. , vol.2 , pp. 175-186
    • Gascón, J.A.1    Leung, S.S.F.2    Batista, E.R.3    Batista, V.S.4
  • 38
    • 43849107972 scopus 로고    scopus 로고
    • Optimization of Cutting Schemes for the Evaluation of Molecular Electrostatic Potentials in Proteins via Moving-Domain QM/MM
    • Menikarachchi, L. C.; Gascón, J. A. Optimization of Cutting Schemes for the Evaluation of Molecular Electrostatic Potentials in Proteins via Moving-Domain QM/MM J. Mol. Model. 2008, 14, 479-487
    • (2008) J. Mol. Model. , vol.14 , pp. 479-487
    • Menikarachchi, L.C.1    Gascón, J.A.2
  • 39
    • 4143088551 scopus 로고    scopus 로고
    • An Efficient Linear Scaling Method for ab Initio Calculation of Electron Density of Proteins
    • Gao, A. M.; Zhang, D. W.; Zhang, J. Z. H.; Zhang, Y. K. An Efficient Linear Scaling Method for ab Initio Calculation of Electron Density of Proteins Chem. Phys. Lett. 2004, 394, 293-297
    • (2004) Chem. Phys. Lett. , vol.394 , pp. 293-297
    • Gao, A.M.1    Zhang, D.W.2    Zhang, J.Z.H.3    Zhang, Y.K.4
  • 40
    • 33748569544 scopus 로고    scopus 로고
    • A New Quantum Method for Electrostatic Solvation Energy of Protein
    • Mei, Y.; Ji, C.; Zhang, J. Z. A New Quantum Method for Electrostatic Solvation Energy of Protein J. Chem. Phys. 2006, 125, 094906
    • (2006) J. Chem. Phys. , vol.125 , pp. 094906
    • Mei, Y.1    Ji, C.2    Zhang, J.Z.3
  • 41
    • 0041377620 scopus 로고    scopus 로고
    • Molecular Fractionation with Conjugate Caps for Full Quantum Mechanical Calculation of Protein-Molecule Interaction Energy
    • Zhang, D. W.; Zhang, J. Z. H. Molecular Fractionation with Conjugate Caps for Full Quantum Mechanical Calculation of Protein-Molecule Interaction Energy J. Chem. Phys. 2003, 119, 3599-3605
    • (2003) J. Chem. Phys. , vol.119 , pp. 3599-3605
    • Zhang, D.W.1    Zhang, J.Z.H.2
  • 42
    • 58049209744 scopus 로고    scopus 로고
    • Protein Polarization Is Critical to Stabilizing AF-2 and Helix-2′ Domains in Ligand Binding to PPAR-γ
    • Ji, C. G.; Zhang, J. Z. H. Protein Polarization Is Critical to Stabilizing AF-2 and Helix-2′ Domains in Ligand Binding to PPAR-γ J. Am. Chem. Soc. 2008, 130, 17129-17133
    • (2008) J. Am. Chem. Soc. , vol.130 , pp. 17129-17133
    • Ji, C.G.1    Zhang, J.Z.H.2
  • 43
    • 77950813968 scopus 로고    scopus 로고
    • Electrostatic Polarization Makes a Substantial Contribution to the Free Energy of Avidin-Biotin Binding
    • Tong, Y.; Mei, Y.; Li, Y. L.; Ji, C. G.; Zhang, J. Z. H. Electrostatic Polarization Makes a Substantial Contribution to the Free Energy of Avidin-Biotin Binding J. Am. Chem. Soc. 2010, 132, 5137-5142
    • (2010) J. Am. Chem. Soc. , vol.132 , pp. 5137-5142
    • Tong, Y.1    Mei, Y.2    Li, Y.L.3    Ji, C.G.4    Zhang, J.Z.H.5
  • 47
    • 33748538349 scopus 로고    scopus 로고
    • Automatic Atom Type and Bond Type Perception in Molecular Mechanical Calculations
    • Wang, J. M.; Wang, W.; Kollman, P. A.; Case, D. A. Automatic Atom Type and Bond Type Perception in Molecular Mechanical Calculations J. Mol. Graphics Modell. 2006, 25, 247-260
    • (2006) J. Mol. Graphics Modell. , vol.25 , pp. 247-260
    • Wang, J.M.1    Wang, W.2    Kollman, P.A.3    Case, D.A.4
  • 52
    • 0037080244 scopus 로고    scopus 로고
    • Rapid Grid-Based Construction of the Molecular Surface and the Use of Induced Surface Charge to Calculate Reaction Field Energies: Applications to the Molecular Systems and Geometric Objects
    • Rocchia, W.; Sridharan, S.; Nicholls, A.; Alexov, E.; Chiabrera, A.; Honig, B. Rapid Grid-Based Construction of the Molecular Surface and the Use of Induced Surface Charge to Calculate Reaction Field Energies: Applications to the Molecular Systems and Geometric Objects J. Comput. Chem. 2002, 23, 128-137
    • (2002) J. Comput. Chem. , vol.23 , pp. 128-137
    • Rocchia, W.1    Sridharan, S.2    Nicholls, A.3    Alexov, E.4    Chiabrera, A.5    Honig, B.6
  • 53
    • 3042524904 scopus 로고
    • A Well-Behaved Electrostatic Potential Based Method Using Charge Restraints for Deriving Atomic Charges: The RESP Model
    • Bayly, C. I.; Cieplak, P.; Cornell, W. D.; Kollman, P. A. A Well-Behaved Electrostatic Potential Based Method Using Charge Restraints for Deriving Atomic Charges: The RESP Model J. Phys. Chem. 1993, 97, 10269-10280
    • (1993) J. Phys. Chem. , vol.97 , pp. 10269-10280
    • Bayly, C.I.1    Cieplak, P.2    Cornell, W.D.3    Kollman, P.A.4
  • 54
    • 0000667030 scopus 로고
    • Application of RESP Charges to Calculate Conformational Energies, Hydrogen Bond Energies, and Free Energies of Solvation
    • Cornell, W. D.; Cieplak, P.; Bayly, C. I.; Kollman, P. A. Application of RESP Charges to Calculate Conformational Energies, Hydrogen Bond Energies, and Free Energies of Solvation J. Am. Chem. Soc. 1993, 115, 9620-9631
    • (1993) J. Am. Chem. Soc. , vol.115 , pp. 9620-9631
    • Cornell, W.D.1    Cieplak, P.2    Bayly, C.I.3    Kollman, P.A.4
  • 55
    • 33646940952 scopus 로고
    • Numerical Integration of the Cartesian Equations of Motion of a System with Constraints: Molecular Dynamics of n -Alkanes
    • Jean-Paul, R.; Giovanni, C.; Herman, J. C. B. Numerical Integration of the Cartesian Equations of Motion of a System with Constraints: Molecular Dynamics of n -Alkanes J. Comput. Phys. 1977, 23, 327-341
    • (1977) J. Comput. Phys. , vol.23 , pp. 327-341
    • Jean-Paul, R.1    Giovanni, C.2    Herman, J.C.B.3
  • 56
    • 33846823909 scopus 로고
    • Particle Mesh Ewald: An N ·log(N) Method for Ewald Sums in Large Systems
    • Darden, T.; York, D.; Pedersen, L. Particle Mesh Ewald: An N·log(N) Method for Ewald Sums in Large Systems J. Chem. Phys. 1993, 98, 10089-10092
    • (1993) J. Chem. Phys. , vol.98 , pp. 10089-10092
    • Darden, T.1    York, D.2    Pedersen, L.3
  • 57
    • 84952104504 scopus 로고
    • An Analysis of the Accuracy of Langevin and Molecular Dynamics Algorithms
    • Pastor, R. W.; Brooks, B. R.; Szabo, A. An Analysis of the Accuracy of Langevin and Molecular Dynamics Algorithms Mol. Phys. 1988, 65, 1409-1419
    • (1988) Mol. Phys. , vol.65 , pp. 1409-1419
    • Pastor, R.W.1    Brooks, B.R.2    Szabo, A.3
  • 58
    • 0035451052 scopus 로고    scopus 로고
    • What Are the Dielectric "constants" of Proteins and How to Validate Electrostatic Models?
    • Schutz, C. N.; Warshel, A. What Are the Dielectric "Constants" of Proteins and How to Validate Electrostatic Models? Proteins: Struct., Funct., Genet. 2001, 44, 400-417
    • (2001) Proteins: Struct., Funct., Genet. , vol.44 , pp. 400-417
    • Schutz, C.N.1    Warshel, A.2
  • 59
    • 0022816745 scopus 로고
    • The Dielectric Constant of a Folded Protein
    • Gilson, M. K.; Honig, B. H. The Dielectric Constant of a Folded Protein Biopolymers 1986, 25, 2097-2119
    • (1986) Biopolymers , vol.25 , pp. 2097-2119
    • Gilson, M.K.1    Honig, B.H.2
  • 60
    • 71549120410 scopus 로고    scopus 로고
    • Electronic Polarization Is Important in Stabilizing the Native Structures of Proteins
    • Ji, C. G.; Zhang, J. Z. H. Electronic Polarization Is Important in Stabilizing the Native Structures of Proteins J. Phys. Chem. B 2009, 113, 16059-16064
    • (2009) J. Phys. Chem. B , vol.113 , pp. 16059-16064
    • Ji, C.G.1    Zhang, J.Z.H.2
  • 61
    • 67650551442 scopus 로고    scopus 로고
    • Simulation of NMR Data Reveals That Proteins' Local Structures Are Stabilized by Electronic Polarization
    • Tong, Y.; Ji, C. G.; Mei, Y.; Zhang, J. Z. H. Simulation of NMR Data Reveals That Proteins' Local Structures Are Stabilized by Electronic Polarization J. Am. Chem. Soc. 2009, 131, 8636-8641
    • (2009) J. Am. Chem. Soc. , vol.131 , pp. 8636-8641
    • Tong, Y.1    Ji, C.G.2    Mei, Y.3    Zhang, J.Z.H.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.