Proteomic

Ka-Lok Ng

Asia University

Topics to be covered

• Amino acids: the building blocks of proteins• Dihedral angles (φandψ) in the backbone of biopolymers and the Ramacha

ndran plots• Tertiary structures of proteins: all-a topologies, all-b topologies, b barrels, t

he Greek Key topology, and the Jellyroll Topology, and a/b topologies (a/b horseshoe). 

• Protein 1D, 2D and 3D databases: PDB, SCOP, CATH, DSSP, Uniprot  • Physical methods of determining the three dimensional structure of protein  • Protein folding in vivo and in vitro  • Protein structure prediction: homology, threading, ab inito prediction  • Protein-protein interaction network  • Protein structure and molecular approach to medicine  • X-ray and NMR• Discussion of articles

• 40% on quiz, classwork, homework, class attendance  • Mid-term, oral presentation – 30%, final exam. – 30

%, oral presentation

References

• Orengo, Jones, and Thornton, Bioinformatics: genes, proteins, and computers. BIOS scientific Publishers (2003)

• Baxevanis A. and Ouellette B.F. Francis. Bioinformatics. J. Wiley (2005)

• Lesk A.M. Introduction to Protein structures Oxford University Press (2001).