The dynamic picture of protein structure

[1]  M. Karplus,et al.  Molecular dynamics of ferrocytochrome c , 1980, Nature.

[2]  P. Wolynes,et al.  Nonsteady hydrodynamics of biopolymer motions , 1977 .

[3]  F A Quiocho,et al.  The radius of gyration of L-arabinose-binding protein decreases upon binding of ligand. , 1981, The Journal of biological chemistry.

[4]  M Karplus,et al.  Time dependence of atomic fluctuations in proteins: analysis of local and collective motions in bovine pancreatic trypsin inhibitor. , 1982, Biochemistry.

[5]  Brownian motion of a system of coupled harmonic oscillators , 1981 .

[6]  M. Karplus,et al.  Pressure dependence of aromatic ring rotations in proteins: a collisional interpretation , 1981 .

[7]  M. Karplus,et al.  Internal mobility of ferrocytochrome c , 1980, Nature.

[8]  M. Karplus,et al.  Internal motions of antibody molecules , 1977, Nature.

[9]  J. Mccammon,et al.  Gated binding of ligands to proteins , 1981, Nature.

[10]  S. Chandrasekhar.  Stochastic problems in Physics and Astronomy , 1943 .

[11]  Hans Frauenfelder,et al.  Dynamics of Proteins , 1982 .

[12]  M. Levitt,et al.  Refinement of protein conformations using a macromolecular energy minimization procedure. , 1969, Journal of molecular biology.

[13]  J A McCammon,et al.  Hinge-bending in L-arabinose-binding protein. The "Venus's-flytrap" model. , 1982, The Journal of biological chemistry.

[14]  M. Karplus,et al.  Protein structural fluctuations during a period of 100 ps , 1979, Nature.

[15]  V. Schumaker,et al.  Segmental flexibility of immunoglobulin G antibody molecules in solution: a new interpretation. , 1981, Biochemistry.

[16]  Hans Frauenfelder,et al.  Temperature-dependent X-ray diffraction as a probe of protein structural dynamics , 1979, Nature.

[17]  Repulsive interactions between polar and apolar atoms in globular proteins. , 1981, Journal of molecular biology.

[18]  G. N. Ramachandran,et al.  Stereochemistry of polypeptide chain configurations. , 1963, Journal of molecular biology.

[19]  Ronald M. Levy,et al.  Vibrational approach to the dynamics of an α‐helix , 1979 .

[20]  J. A. McCammon,et al.  Dynamics of tyrosine ring rotations in a globular protein , 1980 .

[21]  M. Karplus,et al.  Protein dynamics in solution and in a crystalline environment: a molecular dynamics study. , 1982, Biochemistry.

[22]  G. Weber,et al.  Fluorescence depolarization and rotational modes of tyrosine in bovine pancreatic trypsin inhibitor. , 1982, Biochemistry.

[23]  Martin Karplus,et al.  Simulation of Protein Dynamics , 1980 .

[24]  O. Jardetzky.  NMR studies of macromolecular dynamics , 1981 .

[25]  M. James.  An X-ray crystallographic approach to enzyme structure and function. , 1980, Canadian journal of biochemistry.

[26]  J. D. Morgan,et al.  Molecular dynamics of ferrocytochrome c. Magnitude and anisotropy of atomic displacements. , 1981, Journal of molecular biology.

[27]  F. Gurd,et al.  Motions in proteins. , 1979, Advances in protein chemistry.

[28]  M. Karplus,et al.  Increase of carbon-13 NMR relaxation times in proteins due to picosecond motional averaging , 1981 .

[29]  M Karplus,et al.  Dynamical theory of activated processes in globular proteins. , 1982, Proceedings of the National Academy of Sciences of the United States of America.

[30]  M. Karplus,et al.  Dynamics of activated processes in globular proteins. , 1979, Proceedings of the National Academy of Sciences of the United States of America.

[31]  D. Phillips,et al.  Crystallographic studies of the dynamic properties of lysozyme , 1979, Nature.

[32]  M. Karplus,et al.  The hinge-bending mode in lysozyme , 1976, Nature.

[33]  D. Chandler.  Equilibrium structure and molecular motion in liquids , 1974 .

[34]  Harold A. Scheraga,et al.  Calculations of Conformations of Polypeptides , 1968 .

[35]  J. Mccammon,et al.  Stochastically gated diffusion‐influenced reactions , 1982 .

[36]  J. Mccammon,et al.  Molecular dynamics of ferrocytochrome c: Anharmonicity of atomic displacements , 1982, Biopolymers.

[37]  M. Karplus,et al.  Correlated helix–coil transitions in polypeptides , 1981 .

[38]  T. Steitz,et al.  Yeast hexokinase in solution exhibits a large conformational change upon binding glucose or glucose 6-phosphate. , 1979, Biochemistry.

[39]  Michael Levitt,et al.  Molecular dynamics of hydrogen bonds in bovine pancreatic trypsin inhibitor protein , 1981, Nature.

[40]  J M Sturtevant,et al.  Heat capacity and entropy changes in processes involving proteins. , 1977, Proceedings of the National Academy of Sciences of the United States of America.

[41]  S. Northrup,et al.  Saddle‐point avoidance in diffusional reactions , 1983 .

[42]  M Karplus,et al.  The internal dynamics of globular proteins. , 1981, CRC critical reviews in biochemistry.

[43]  N. Go,et al.  Fluctuations and mechanical strength of α‐helices of polyglycine and poly(L‐alanine) , 1976 .

[44]  Nobuhiro Gō,et al.  Fluctuations of an α‐helix , 1976 .

[45]  M. Karplus,et al.  Diffusion–collision model for protein folding , 1979 .

[46]  D. Ermak,et al.  Brownian dynamics with hydrodynamic interactions , 1978 .

[47]  M Levitt,et al.  How many base-pairs per turn does DNA have in solution and in chromatin? Some theoretical calculations. , 1978, Proceedings of the National Academy of Sciences of the United States of America.

[48]  O. Ptitsyn.  Inter‐domain mobility in proteins and its probable functional role , 1978, FEBS letters.

[49]  J. Mccammon,et al.  Diffusional correlations in polymer dynamics , 1980 .

[50]  H Frauenfelder,et al.  Dynamics of ligand binding to myoglobin. , 1975, Biochemistry.

[51]  R. Zwanzig,et al.  Time-Correlation Functions and Transport Coefficients in Statistical Mechanics , 1965 .

[52]  J. Mccammon,et al.  Rate theory for gated diffusion-influenced ligand binding to proteins , 1982 .

[53]  M. Karplus,et al.  Method for estimating the configurational entropy of macromolecules , 1981 .

[54]  M. Karplus,et al.  Dynamics of ligand binding to heme proteins. , 1979, Journal of molecular biology.

[55]  A. Kitaygorodsky.  Calculation of conformations of organic molecules , 1960 .

[56]  M Karplus,et al.  Molecular dynamics of an alpha-helical polypeptide: Temperature dependence and deviation from harmonic behavior. , 1982, Proceedings of the National Academy of Sciences of the United States of America.

[57]  David Chandler,et al.  Statistical mechanics of isomerization dynamics in liquids and the transition state approximation , 1978 .

[58]  J. A. McCammon,et al.  Side-chain rotational isomerization in proteins: a mechanism involving gating and transient packing defects , 1983 .

[59]  J. Hynes.  Statistical Mechanics of Molecular Motion in Dense Fluids , 1977 .

[60]  F M Richards,et al.  Areas, volumes, packing and protein structure. , 1977, Annual review of biophysics and bioengineering.

[61]  M. Karplus,et al.  Protein-folding dynamics , 1976, Nature.

[62]  R. Levy,et al.  Protein dynamics and NMR relaxation: comparison of simulations with experiment , 1982, Nature.

[63]  M Karplus,et al.  Picosecond dynamics of tyrosine side chains in proteins. , 1979, Biochemistry.

[64]  R. Levy,et al.  Initial fluorescence depolarization of tyrosines in proteins , 1982 .

[65]  J. Mccammon,et al.  Efficient trajectory simulation methods for diffusional barrier crossing processes , 1980 .

[66]  W. Peticolas.  Low frequency vibrations and the dynamics of proteins and polypeptides. , 1979, Methods in enzymology.

[67]  M. Karplus,et al.  Dynamics of folded proteins , 1977, Nature.

[68]  Ronald M. Levy,et al.  Helix–coil transitions in a simple polypeptide model , 1980 .

[69]  G. Petsko,et al.  Conformational substates in a protein: structure and dynamics of metmyoglobin at 80 K. , 1982, Proceedings of the National Academy of Sciences of the United States of America.