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© 1987 IRL Press Ltd.

A modified Chou and Fasman protein structure algorithm

William W. Ralph 1, Teresa Webster and Temple F. Smith *,

MBCRR, Dana-Farber Cancer Institute, Harvard School of Public Health 44 Binney Street, Boston, MA 02115
1Northern Michigan University, Physics Department Marquette, Ml 49855, USA

*To whom reprint requests should be sent

A FORTRAN program PRSTRC has been developed for protein secondary structure prediction, which is a modified Chou and Fasman (1978) analysis. This implementation carries out a running average of amino acid structure occurrence frequencies, utilizes a simple set of nucleation conditions, and allows user control over nucleation threshold and cutoff parameters. The algorithm includes prediction of the newly defined secondary structure elements: omega loops (1986). It also generates a charge distribution and hydropathy profile. Output includes a simple graphic display for a printer, or a CRT using color addition. Correct structures are predicted for T. dyscritum hemerythrin and the variable domain of mouse immunoglobin k-chain.

Received on November 17, 1986; accepted on June 10, 1987

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