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Integrity of H1 helix in prion protein revealed by molecular dynamic simulations to be especially vulnerable to changes in the relative orientation of H1 and its S1 flank

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Abstract

In the template-assistance model, normal prion protein (PrPC), the pathogenic cause of prion diseases such as Creutzfeldt-Jakob in human, bovine spongiform encephalopathy in cow, and scrapie in sheep, converts to infectious prion (PrPSc) through an autocatalytic process triggered by a transient interaction between PrPC and PrPSc. Conventional studies suggest the S1-H1-S2 region in PrPC to be the template of S1-S2 β-sheet in PrPSc, and the conformational conversion of PrPC into PrPSc may involve an unfolding of H1 in PrPC and its refolding into the β-sheet in PrPSc. Here we conduct a series of simulation experiments to test the idea of transient interaction of the template-assistance model. We find that the integrity of H1 in PrPC is vulnerable to a transient interaction that alters the native dihedral angles at residue Asn143, which connects the S1 flank to H1, but not to interactions that alter the internal structure of the S1 flank, nor to those that alter the relative orientation between H1 and the S2 flank.

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Acknowledgments

This work is partially supported by grants 93-2811-B-008-001 and 94-2112-M-008-013 from the National Science Council, Taiwan, ROC. We are grateful to the National Center for High-performance Computing for computer time and facilities. CYT appreciates technical help from HT Chen on the extraction of simulation data.

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  1. Chih-Yuan Tseng

    Present address: Department of Oncology, University of Alberta, Edmonton, AB, T6G 1Z2, Canada

Authors and Affiliations

  1. Department of Physics, National Central University, 300 Chungda Rd., Chungli, 320, Taiwan

    Chih-Yuan Tseng, Chun-Ping Yu & H. C. Lee

  2. Graduate Institute of Systems Biology and Bioinformatics, National Central University, Chungli, 320, Taiwan

    H. C. Lee

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  1. Chih-Yuan Tseng
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  2. Chun-Ping Yu
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  3. H. C. Lee
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Correspondence to Chih-Yuan Tseng.

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Tseng, CY., Yu, CP. & Lee, H.C. Integrity of H1 helix in prion protein revealed by molecular dynamic simulations to be especially vulnerable to changes in the relative orientation of H1 and its S1 flank. Eur Biophys J 38, 601–611 (2009). https://doi.org/10.1007/s00249-009-0414-4

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  • DOI: https://doi.org/10.1007/s00249-009-0414-4

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