proteinfoldingandstructure.docVIP

Protein folding and structure Reading Dobson CM. Experimental investigation of protein folding and misfolding. Methods. 2004 Sep;34(1):4-14. Review. Dobson CM. Protein folding and misfolding. Nature. 2003 Dec 18;426(6968):884-90. Review. Lindorff-Larsen K, Best RB, Depristo MA, Dobson CM, Vendruscolo M. Simultaneous determination of protein structure and dynamics. Nature. 2005 Jan 13;433(7022):128-32. Lindorff-Larsen K, Vendruscolo M, Paci E, Dobson CM. Transition states for protein folding have native topologies despite high structural variability. Nat Struct Mol Biol. 2004 May;11(5):443-9. Dedmon MM, Lindorff-Larsen K, Christodoulou J, Vendruscolo M, Dobson CM. Mapping long-range interactions in alpha-synuclein using spin-label NMR and ensemble molecular dynamics simulations. J Am Chem Soc. 2005 Jan 19;127(2):476-7. Klein-Seetharaman J, Oikawa M, Grimshaw SB, Wirmer J, Duchardt E, Ueda T, Imoto T, Smith LJ, Dobson CM, Schwalbe H. Long-range interactions within a nonnative protein. Science. 2002 Mar 1;295(5560):1719-22. Chan HS, Dill KA. Protein folding in the landscape perspective: chevron plots and non-Arrhenius kinetics. Proteins. 1998 Jan;30(1):2-33. Review. Schonbrun J, Dill KA. Fast protein folding kinetics. Proc Natl Acad Sci U S A. 2003 Oct 28;100(22):12678-82. Liwo A, Khalili M, Scheraga HA Ab initio simulations of protein-folding pathways by molecular dynamics with the united-residue model of polypeptide chains. Proc Natl Acad Sci U S A. 2005 Questions Explain Native state, unfolded state, denatured state, metastable state, denaturation, renaturation Why has a folded protein lower free energy ?G in spite of unfavorable conformational entropy ?S. Levinthal paradox ?-value analysis contact order and folding rate Chevron-plot Transition state ensemble Free energy funnel of folding Chaperones Difference between a prion disease and amyloid disease Thermodynamic and kinetic hypothesis of protein folding Why it is difficult to o