key5 - MIT OpenCourseWare http:/ocw.mit.edu 7.88J Protein...

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MIT OpenCourseWare http://ocw.mit.edu 7.88J Protein Folding Problem Fall 2007 For information about citing these materials or our Terms of Use, visit: http://ocw.mit.edu/terms .
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1) The most direct analysis of potential helix capping mechanisms in the S-peptide is from the Marqusee and Baldwin paper. Herein, they postulate that the Glu2— Arg10 salt bridge distorts the backbone of Glu2 out of an alpha-helical conformation. This provides the N-terminal helix stop signal. For the C-terminal stop signal, they present three possibilities and rule out two of them. First, the D14—V47 hydrogen bond, which precludes helical hydrogen bonding with D14 in the full-length protein, is not necessary for stopping the helix because the helix in the isolated S-peptide (which cannot form the interaction with V47) stops at approximately the same place. Second, the three “helix destabilizing” amino acids at the C-terminus - D14, S15, and S16 – also do not terminate the helix because the helix again stops at the same place even when these residues are
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key5 - MIT OpenCourseWare http:/ocw.mit.edu 7.88J Protein...

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