Peptides in different conformations on the Ramachandran plot
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We know that the sequence of a globular protein determines its native
conformation. Does this apply to short peptides?

Questions:

- select from the PDB archive 6-12 a.r. length peptides, check them
  conformations (helix, sheet, etc.). How will you do that?

- Do you meet peptides that can have radically different
  conformations? If not, why? If so, why and how to reconcile it with
  Anfinsen's thermodynamic hypothesis?

Programs:

This study will likely require two Unix programs: one should to "trim"
short peptides from the PDB, and another to count them
conformations. What parameters will you calculate to determine the
peptide conformation?