An overview of proteins; starting to use RasMol; studying the
amino acids
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This is a straightforward practical in which you will start to look at amino acids and their structure. If you are from a Biology background, you should be fairly familiar with the information, though you probably haven't looked at each amino acids in so much detail. If you are from a computing background, this clearly will all be new information.
The second aim of this series of practicals is to get you familiar with using the RasMol molecular graphics program. This first practical also serves to introduce RasMol and make sure that you can download and view a PDB file.
Alternative version in case there are problems with RasMol!
Peptide bonds; Ramachandran plots; peptides and secondary
structure
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Tertiary structure; disulphide bonds; hydrogen bonds; van der
Waals interactions
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Electrostatic interactions; the hydrophobic effect; molecular
surfaces and solvent accessibility
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Using the PDB, PDBSum, MSDlite and CATH
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