β Scribed by Charles P. Woodbury Jr.
No coin nor oath required. For personal study only.
IuinOis 60680
A major limitation of the well-known matrix method treatment of linear polymer systems is the large size of the transfer matrix required to account simultaneously for such factors as polymer conformation, polymer sequence, ligand binding, etc. This paper shows how to combine such factors by using a direct product of small matrices, one for each factor, to generate the large transfer matrix. The properties of the direct product operation can be used to simplify considerably the calculation of eigenvalues and eigenvectors of the transfer matrix. This permits one to develop fairly simply the statistical thermodynamics of relatively complicated macromolecular binding systems involving a large number of states for the individual polymer sites. Applications include treatments of sequence-specific binding of ligands, sequencespecific conformational changes, and the combination of the two processes.
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Thanks are due to R. Kaptein, R. Boelens, and A. Bonvin for providing the program IRMA2 and to R. Boelens, A. Rullmann, and A. Bonvin for discussions and reading the manuscript. We are also grateful to E. Shnol' for permanent interest in this work and helpful discussions. This work was supported by