Protein structure and dynamics

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Dihedral angle distribution of database structures Dots represent the observed (φ, ψ) pairs in 310 protein structures in the Brookhaven Protein Databank (adapted from (Thornton, 1992))
The Protein Data Bank (PDB) • Electronic storage, in standard d format, of thousands of protein structures – including wild-type, mutants, t ligand-bound, d and protein- protein complexes • Freely downloadable • (x,y,z) coordinates of atoms given • Data from X-ray, NMR, modelling • http://rutgers.rcsb.org/pdb/ rcsb
Page 1 and 2: Protein structure and dynamics Arte
Page 3 and 4: A protein consists of a sequence of
Page 5 and 6: Definition of dihedral angles Range
Page 7 and 8: The peptide plane
Page 9 and 10: Side chains enjoy additional degree
Page 11 and 12: A closer look at Alpha-helix Helica
Page 13 and 14: Supersecondary structures Schematic
Page 15: Contact Maps Describe Protein Topol
Page 20 and 21: Large Structural Changes Example:
Page 22 and 23: Large Structural Changes: Allostery
Page 24 and 25: Important mode in HIV-1 RT p66 thum

Protein structure and dynamics

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