Overview of molecular forces
An overview of molecular forces in relation to protein structure
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Oliver Smart
(c) O.S. Smart
1995, all rights reserved
Introduction
This section of the course concentrates on the nature of the
interactions which underlie the structure of proteins.
An attempt will be made to explain the fundamental principles for each
effect and the mathematical forms which are conventially used in
computational representations of biomolecules.
The final parts of the section give a brief introduction to the application
of simulation methods to proteins.
In a number of places links are provided for advanced topics.
Apologies
Please accept my apologies but this section is still under construction.
The items listed in the outline in bold have been completed. Those
in italics have yet to be written..
O.S.S.
Outline
Start this section by looking at:
Preliminary considerations unit.
Acknowledgements
This section was made possible by the generous support of the
Wellcome Trust in the form of an Career Development Fellowship
under the Biomathematics Initative, which provides my salary and
the equipment used in its production. Figures were prepared using
the programs: xpaint written by David Koblas (koblas@netcom.com),
sigmaplot (product of Jandel Scientific), snapshot (SGI) and
Quanta (a product of Molecular Simulations Inc.). Most importantly,
I should like to thank my wife Marisa for putting up with the
amount of time that this project has taken!
Quote from J.B.S. Haldane
One cannot avoid making mistakes if one tries
to produce a set of words, or of mathematical
formulae, to describe nature. Nature is more complicated
than language or mathematics. Nevertheless, one must
do one's best to produce a set of symbols which
are not to discordant with the facts.
J.B.S. Haldane, preface to "What is Life?", Lindsay Drummond, 1949
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