Subunit secondary structure in filamentous viruses: predictions and observations

Journal of Biomolecular Structure & Dynamics
J Finer-MooreG J Thomas

Abstract

The algorithm of Garnier, Osguthorpe and Robson (J. Mol. Biol. 120, 97-120, 1978) for prediction of protein secondary structure has been applied to the coat protein sequences of six filamentous bacteriophages: fd, If1, IKe, Pf1, Xf and Pf3. For subunits of Class I virions (fd, If1, IKe), the algorithm predicts a very high percentage of helix in comparison to other structure types, which is in accord with the results of laser Raman and circular dichroism measurements. For subunits of the Class II virions (Pf1, Xf, Pf3), the algorithm consistently predicts a predominance of beta structure, which is compatible with the demonstrated facility for conversion of Class II subunits from alpha-helix to beta-strand under appropriate experimental conditions (Thomas, Prescott and Day, J. Mol. Biol. 165, 321-356, 1983). Even when the algorithm is biased to favor helix, the Class II virion subunits are predicted to contain considerably more strand than helix. Qualitatively similar results are obtained using the algorithm of Chou and Fasman (Adv. Enzym. 47, 45-148, 45-148). Therefore, both predictive and experimental methods indicate a distinction between Class I and II subunits, which is reflected in a greater tendency of the latter to adopt ...Continue Reading

References

Jun 14, 1978·Molecular & General Genetics : MGG·A Taketo, K Kodaira
Sep 25, 1974·Journal of Molecular Biology·Y Nakashima, W Konigsberg
Feb 1, 1981·Proceedings of the National Academy of Sciences of the United States of America·S ShojiK Titani
Sep 9, 1983·Science·Y TakedaB W Matthews
Jan 1, 1984·Proceedings of the National Academy of Sciences of the United States of America·J Finer-Moore, R M Stroud
Feb 1, 1984·Proceedings of the National Academy of Sciences of the United States of America·D G PuttermanL A Day
May 1, 1981·Proceedings of the National Academy of Sciences of the United States of America·G J Thomas, L A Day
Jan 25, 1981·Journal of Molecular Biology·D L Caspar, L Makowski

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