Day 5 / Protein structure

1 hour: Introduction to protein structure (Slides: chimera_4)

3 hours: Visualization of structures with Chimera, Protein Domains (Practical work) (Slides: lesson_domains_4)

 

Day 6 / Protein structure

2 hours: Protein structure determination (lecture with some practical exercise)

2 hours: Homology Modelling (Slides: lesson_model3D_7)

PDB model of 3CLpro from human SARS virus: 1p9t

Multiple sequence alignment of 3CLpro proteins: PF05409_7seqs

 

Links:

PDB: http://www.rcsb.org/pdb/

UniProt: http://www.uniprot.org

PFAM: http://pfam.xfam.org/

 

Software (ZDV-Apps):

Jalview, Chimera, Clustalw, Bioedit

ZDV-Apps - How to use