Biophysics I

Plan of the lecture:

1. Structure and role of biopolymers
2. Selected methods of structural and dynamic investigations of proteins and nucleic acids
   1. Electrophoresi and mass spectrometry in sequence determination
   2. Ultracentrifugation
   3. Nuclear magnetic resonance (NMR)
   4. X-ray diffraction
   5. Molecular dynamics (MD) i restrained molecular dynamics (rMD)
   6. Atomic force microscopy (AFM)
3. Kwasy nukleinowe DNA i RNA
   1. Structure, conformation and tautomerism of nucleotides
   2. Complementary base pairing
   3. helical and nonhelical secondary structures
   4. Formation, decomposition and "breething" of helices
   5. Tertiary structures: DNA cruciform, supercoiling, tRNA structure, RNA pseudoknot
   6. DNA structure in chromosomes
   7. Elements of nucleic acid molecular dynamics
4. Proteins
   1. Structure, conformation, and physico-chemical properties of amino acids; peptide bond
   2. Secondary, tertiary and quaternary structure; Ramachandran plot, domens, subunits
   3. Protein dynamics and folding (computer, in vitro, in vivo)
5. Enzymes and enzyme kinetics;
6. Specyfic interactions of proteins and nucleic acids
   1. Intercalation
   2. Aptamers
   3. Protein - nucleic acid interactions

Bibliography:

1. W. Saenger, Principles of nucleic acid structures, 1984 Springer-Verlag
2. T.E. Creighton, Proteins. Structures and molecular properties, 1993 Freeman & Co.