PMID: 8968956Oct 1, 1996Paper

Modeling of the three-dimensional structure of luffin-alpha and its simulated reaction with the substrate oligoribonucleotide GAGA

Journal of Protein Chemistry
R S ChenR N Wong

Abstract

A fundamental problem in biochemistry and molecular biology is understanding the spatial structure of macromolecules and then analyzing their functions. In this study, the three-dimensional structure of a ribosome-inactivating protein luffin-alpha was predicted using a neural network method and molecular dynamics simulation. A feedforward neural network with the backpropagation learning algorithm were trained on model class of homologous proteins including trichosanthin and alpha-momorcharin. The distance constraints for the C alpha atoms in the protein backbone were utilized to generate a folded crude conformation of luffin-alpha by model building and the steepest descent minimization approach. The crude conformation was refined by molecular dynamics techniques and a simulated annealing procedure. The interaction between luffin-alpha and its analogous substrate GAGA was also simulated to understand its action mechanism.

References

Oct 15, 1990·FEBS Letters·S Lee-HuangP L Huang
Sep 5, 1991·Journal of Molecular Biology·Y EndoI G Wool
Jan 1, 1991·Circulation Research·V LindnerM A Reidy
Jan 1, 1990·Progress in Growth Factor Research·D A Lappi, A Baird
Nov 1, 1989·Molecular and Cellular Biology·D SchlossmanA Frankel
Apr 1, 1989·Proceedings of the National Academy of Sciences of the United States of America·M S McGrathJ Marsh
Aug 20, 1988·Journal of Molecular Biology·N Qian, T J Sejnowski
May 1, 1988·Journal of Neurosurgery·J Zovickian, R J Youle
Jan 20, 1986·FEBS Letters·F Stirpe, L Barbieri
Mar 5, 1985·Journal of Molecular Biology·R KapteinW F van Gunsteren
May 5, 1974·Journal of Molecular Biology·M G Rossman, A Liljas

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