Identification of the most significant amphipathic helix with application to HIV and MHV envelope proteins |
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Authors: | Auger Ivan E; Lawrence Charles E |
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Institution: | Laboratory of Biometrics PO Box 509
Wadsworth Center for Laboratories and Research, New York State Department of Health Albany. NY 12201, USA |
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Abstract: | Amphipathic helices, which play important roles in protein structure,occur in a wide variety of lengths. Yet existing methods employfixed window lengths. We present a hierarchical procedure thatidentifies the Q most significant amphipathic helices regardlessof length. Since the observed hydrophobicities are not normallydistributed, test statistics usually employed for least-squaresregression are inappropriate for assessing statistical significanceof amphipathic helices. We show that an adjusted F statisticprovides a good test. An application to the envelope proteinof HIV finds an unexpected long amphipathic helix in gp41.
Received on July 12, 1989; accepted on February 28, 1990 |
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