Hoelzer Sandbox: Difference between revisions

To design our model of the β2-adrenergic receptor, we used the atomic coordinates for this structure as reported in the <scene name='Hoelzer_Sandbox/Spacefilled/1'>pdb file 2rh1</scene>, from the Ray Stevens laboratory at the Scripps Research Institute.  Our model represents <scene name='Hoelzer_Sandbox/Spacefilled_1/1'>amino acids 29-230 and 263-342 </scene>.  Starting with a cpk-colored, spacefilled representation of the protein, we simplified this image by converting it to an <scene name='Hoelzer_Sandbox/Spacefilled_3/1'>alpha-carbon backbone representation</scene>.  We colored the seven trans-membrane alpha helices green --- connected by loops that we colored gray.  We then displayed four sidechains <scene name='Hoelzer_Sandbox/Spacefilled_4/2'>(Phe 193, Trp 286, Phe 289, and Phe 290)</scene> involved in the binding of a beta-blocker, and colored them blue.  The beta-blocker, Carazolol, was then added in a ball-and-stick format, colored orange.  The three cholesterol molecules resolved in this structure, bound to the outside surface of the protein, were added and displayed in a ball-and-stick format, colored red.  Finally, the N-terminal end of the protein was colored blue, and the C-terminal end was colored magenta.