Using Molecular
Viewer to see the features of Protein Structure
- To familiar with RasMol
- To understand protein structure features by RasMol commands
- Deadline - 1/2/2002
Make a GIF
picture of the PDB file that you find in assignment 7 by RasMol.
Display it in cartoon form and color it by structure. Please make
the orientation of the molecule just like the molecule in the picture
of assignment 7 - 2.
Residues Glu173 and Arg177
are possible to form an ion pair (salt-bridge). (a) Draw a zoom-in
picture of this pair. Show these two residues in sticks and color
with cpk. The rest of protein in backbone form.
(b) Measure the distance between Glu173A.OE
and ARG177A.NH.
Show a protein fragment
with residues 622 to 699 only. Show them in cartoon form and color
with temperature.
Make a stereo picture for only the
atoms within 6.0 Angstrom of Phe721. Show this residue in green
color, others in cpk and all the residues in wireframe 0.1 format.
