Theoretical Biochemistry :Processes and Properties of Biological Systems ( Volume 9 )

Publication subTitle :Processes and Properties of Biological Systems

Publication series :Volume 9

Author: Eriksson   Leif A.  

Publisher: Elsevier Science‎

Publication year: 2001

E-ISBN: 9780080542706

P-ISBN(Paperback): 9780444502926

P-ISBN(Hardback):  9780444502926

Subject: Q5 Biochemistry

Language: ENG

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Description

Theoretical chemistry has been an area of tremendous expansion and development over the past decade; from an approach where we were able to treat only a few atoms quantum mechanically or make fairly crude molecular dynamics simulations, into a discipline with an accuracy and predictive power that has rendered it an essential complementary tool to experiment in basically all areas of science.

This volume gives a flavour of the types of problems in biochemistry that theoretical calculations can solve at present, and illustrates the tremendous predictive power these approaches possess.

A wide range of computational approaches, from classical MD and Monte Carlo methods, via semi-empirical and DFT approaches on isolated model systems, to Car-Parinello QM-MD and novel hybrid QM/MM studies are covered. The systems investigated also cover a broad range; from membrane-bound proteins to various types of enzymatic reactions as well as inhibitor studies, cofactor properties, solvent effects, transcription and radiation damage to DNA.

Chapter

Cover

pp.:  1 – 8

Table of Contents

pp.:  8 – 16

Chapter 2. Myoglobin

pp.:  72 – 110

Chapter 3. Mechanisms for Enzymatic Reactions Involving Formation or Cleavage of O-O Bonds

pp.:  110 – 160

Chapter 4. Catalytic Reactions of Radical Enzymes

pp.:  160 – 198

Chapter 5. Theoretical Studies of Coenzyme B12-Dependent Carbon- Skeleton Rearrangemems

pp.:  198 – 230

Chapter 6. Simulations of Enzymatic Systems: Perspectives from Car- Parrinello Molecular Dynamics Simulations

pp.:  230 – 268

Chapter 7. Computational Enzymology: Protein Tyrosine Phosphatase Reactions

pp.:  268 – 304

Chapter 8. Monte Carlo Simulations of HIV-1 Protease Binding Dynamics and Thermodynamics with Ensembles of Protein Conformations: Incorporating Protein Flexibility in Deciphering Mechanisms of Molecular Recognition

pp.:  304 – 356

Chapter 9. Modelling G-Protein Coupled Receptors

pp.:  356 – 392

Chapter 10. Protein-DNA Interactions in the Initiation of Transcription: The Role of Flexibility and Dynamics of the TATA Recognition Sequence and the TATA Box Binding Protein

pp.:  392 – 424

Chapter 11. A Multi-Component Model for Radiation Damage to DNA from its Constituents

pp.:  424 – 482

Chapter 12. New Computational Strategies for the Quantum Mechanical Study of Biological Systems in Condensed Phases

pp.:  482 – 554

Chapter 13. Modelling Enzyme-Ligand Interactions

pp.:  554 – 612

Chapter 14. The QM/MM Approach to Enzymatic Reactions

pp.:  612 – 670

Chapter 15. Quinones and Quinoidal Radicals in Photosynthesis

pp.:  670 – 706

Author Index

pp.:  706 – 710

Subject Index

pp.:  710 – 720

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