Computational Aspects of the Study of Biological Macromolecules by Nuclear Magnetic Resonance Spectroscopy / Edition 1by Jeffrey C. Hoch
Pub. Date: 10/25/2007
Publisher: Springer US
This volume is the scientific chronicle of the NATO Advanced Research Workshop on Computational Aspects of the Study of Biological Macro molecules by Nuclear Magnetic Resonance Spectroscopy, which was held June 3-8, 1990 at Il Ciocco, near Barga, Italy. The use of computers in the study of biological macromolecules by NMR spectroscopy is ubiquitous. The applications are diverse, including data col lection, reduction, and analysis. Furthermore, their use is rapidly evolv ing, driven by the development of new experimental methods in NMR and molecular biology and by phenomenal increases in computational perfor mance available at reasonable cost. Computers no longer merely facilitate, but are now absolutely essential in the study of biological macromolecules by NMR, due to the size and complexity of the data sets that are obtained from modern experiments. The Workshop, and this proceedings volume, provide a snapshot of the uses of computers in the NMR of biomolecules. While by no means exhaustive, the picture that emerges illustrates both the· importance and the diversity of their application.
Table of Contents1. Without Computers No Modern NMR.- 2. Parametric Estimation in 1-D, 2-D, and 3-D NMR.- 3. Computational Aspects of Multinuclear NMR Spectroscopy of Proteins at NMRFAM.- 4. Principles of Multidimensional NMR Techniques for Measurement of J Coupling Constants.- 5. Comparision of the NMR and X-Ray Structures of Hirudin.- 6. The Application of the Linear Prediction Principle to NMR Spectroscopy.- 7. NMR Data Processing and Structure Calculations Using Parallel Computers.- 8. Software Approaches for Determination of 3-Dimensional Molecular Structures from Multi-Dimensional NMR.- 9. Applicability and Limitations of Three-Dimensional NMR Spectroscopy for the Study of Proteins in Solution.- 10. The Role of Selective Two-Dimensional NMR Correlation Methods in Supplementing Computer-Supported Multiplet Analysis by MARCO POLO.- 11. Application of Maximum Entropy Methods to NMR Spectra of Proteins.- 12. Pattern Recognition in Two-Dimensional NMR Spectra of Proteins.- 13. The Application and Development of Software Tools for the Processing and Analysis of Heteronuclear Multi-Dimensional NMR Data.- 14. Distance Geometry in Torsion Angle Space: New Developments and Applications.- 15. Structure Determination by NMR: The Modeling of NMR Parameters as Ensemble Averages.- 16. Time Averaged Distance Restraints in NMR Based Structural Refinement.- 17. Analysis of Backbone Dynamics of Interleukin-1?.- 18. A New Version of DADAS (Distance Analysis in Dihedral Angle Space) and Its Performance.- 19. An Amateur Looks at Error Analysis in the Determination of Protein Structure by NMR.- 20. Structural Interpretation of NMR Data in the Presence of Motion.- 21. New Interactive and Automatic Algorithms for the Assignment of NMR Spectra.- 22. Outline of a Computer Program for the Analysis of Protein NMR Spectra.- 23. Assignment of the NMR Spectra of Homologous Proteins.- 24. Incorporation of Internal Motion in NMR Refinements Based on NOESY Data.- 25. Refinement of Three-Dimensional Protein and DNA Structures in Solution from NMR Data.- 26. How to Deal with Spin-Diffusion and Internal Mobility in Biomolecules. A Relaxation Matrix Approach.- 27. Interactive Computer Graphics in the Assignment of Protein 2D and 3D NMR Spectra.- 28. Determination of Large Protein Structures from NMR Data: Definition of the Solution Structure of the TRP Repressor.- 29. Interpretation of NMR Data in Terms of Protein Structure: Summary of a Round Table Discussion.- 30. Fast Calculation of the Relaxation Matrix.- 31. NMR Structures of Proteins Using Stereospecific Assignments and Relaxation Matrix Refinement in a Hybrid Method of Distance Geometry and Simulated Annealing.- 32. A Critique of the Interpretation of Nuclear Overhauser Effects of Duplex DNA.- 33. Improvement in Resolution with Nonlinear Methods Applied to NMR Signals from Macromolecules.- 34. STELLA and CLAIRE: A Seraglio of Programs for Human-Aided Assignment of 2D 1H NMR Spectra of Proteins.- 35. MolSkop: Towards NMR Molecular Scope.- 36. Ribonuclease H: Full Assignment of Backbone Proton Resonances with Heteronuclear 3D NMR and Solution Structure.- 37. Sampling Properties of Simulated Annealing and Distance Geometry.- 38. Participants.- 39. Index.
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