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  • Proteins -- Structure.  (1)
  • Radial distribution function  (1)
  • density distributions  (1)
  • 1
    Online Resource
    Online Resource
    Newark :John Wiley & Sons, Incorporated,
    Keywords: Proteins -- Structure. ; Electronic books.
    Type of Medium: Online Resource
    Pages: 1 online resource (278 pages)
    Edition: 1st ed.
    ISBN: 9780470141816
    Series Statement: Advances in Chemical Physics Series ; v.148
    DDC: 539 s
    Language: English
    Note: PROTEINS: A THEORETICAL PERSPECTIVE OF DYNAMICS, STRUCTURE, AND THERMODYNAMICS -- CONTENTS -- I. INTRODUCTION -- II. PROTEIN STRUCTURE AND DYNAMICS-AN OVERVIEW -- III. POTENTIAL FUNCTIONS -- IV. DYNAMICAL SIMULATION METHODS -- V. THERMODYNAMIC METHODS -- VI. ATOM AND SIDECHAIN MOTIONS -- VII. RIGID-BODY MOTIONS -- VIII. LARGER-SCALE MOTIONS -- IX. SOLVENT INFLUENCE ON PROTEIN DYNAMICS -- X. THERMODYNAMIC ASPECTS -- XI. EXPERIMENTAL COMPARISONS AND ANALYSIS -- XII. CONCLUDING DISCUSSION -- REFERENCES -- INDEX.
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  • 2
    Electronic Resource
    Electronic Resource
    Springer
    Theoretical chemistry accounts 96 (1997), S. 61-70 
    ISSN: 1432-2234
    Keywords: Key words:Fluids ; Integral equation methods ; Radial distribution function
    Source: Springer Online Journal Archives 1860-2000
    Topics: Chemistry and Pharmacology
    Notes: Abstract. The first two orders of bridge diagrams, those with two and three field points, have been calculated exactly for the Lennard-Jones fluid for several isotherms. The method of calculation was one of expansion in Legendre polynomials, and the dependence of the method on the number of polynomials needed for accurate results was investigated. Thermodynamic and structural properties of the Lennard-Jones fluid calculated from integral equation methods with the inclusion of bridge diagrams were found to be systematically improved. Two attempts at predicting the missing bridge diagrams of even higher order were discussed. The first, which uses the functional form of those diagrams that were calculated exactly, showed no significant improvement. The second, a series sum based on the first two orders of calculated diagrams and motivated by the success of a similar heuristic sum in the case of hard spheres, was extremely successful. When the series sum was employed, thermodynamic and structural quantities were improved to the point where the difference between simulation results and integral equation results was of the same order as the error in the simulations themselves.
    Type of Medium: Electronic Resource
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  • 3
    Electronic Resource
    Electronic Resource
    New York : Wiley-Blackwell
    Biopolymers 45 (1998), S. 469-478 
    ISSN: 0006-3525
    Keywords: molecular dynamics ; hydrated proteins ; crystal structures ; density distributions ; globular proteins ; Chemistry ; Polymer and Materials Science
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: Using molecular dynamics simulations of fully hydrated proteins and analysis of crystal structures contained in the Protein Data Bank, we develop a transferable set of perpendicular radial distribution functions for water molecules around globular proteins. These universal functions may be used to reconstruct the unique three-dimensional solvent density distribution around every individual protein with a modest error. We discuss potential applications of this solvent treatment in protein x-ray crystallographic refinements and in theoretical modeling. We also present a fast, grid-based algorithm for construction of the perpendicular solvent density distributions. © 1998 John Wiley & Sons, Inc. Biopoly 45: 469-478, 1998
    Additional Material: 6 Ill.
    Type of Medium: Electronic Resource
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