Hoelzer Sandbox: Difference between revisions

Line 21:

Virtually any image of a protein that can be created in the computer environment of RP-RasMol, can be converted into a physical model of the protein using rapid prototyping technology.

Virtually any image of a protein that can be created in the computer environment of RP-RasMol, can be converted into a physical model of the protein using rapid prototyping technology. To design our model of the β2-adrenergic receptor, we used the atomic coordinates for this structure as reported in the pdb file 2rh1, from the Ray Stevens laboratory at the Scripps Research Institute.

To design our model of the β2-adrenergic receptor, we used the atomic coordinates for this structure as reported in the pdb file 2rh1, from the Ray Stevens laboratory at the Scripps Research Institute. Our model represents <scene name='Hoelzer_Sandbox/Image_1/1'>amino acids 29-230 and 263-342 </scene>.

* Our model represents <scene name='Hoelzer_Sandbox/Image_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/Image_2/1'>alpha-carbon backbone representation</scene>.

Starting with a cpk-colored, spacefilled representation of the protein, we simplified this image by converting it to an <scene name='Hoelzer_Sandbox/Image_2/1'>alpha-carbon backbone representation</scene>. We colored the seven trans-membrane alpha helices green --- connected by loops that we colored gray.

~~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_4/7'>(Phe 193, Trp 286, Phe 289, and Phe 290)</scene> involved in the binding of a beta-blocker, and colored them blue.

We then displayed four sidechains <scene name='Hoelzer_Sandbox/Spacefilled_4/7'>(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, <scene name='Hoelzer_Sandbox/Spacefilled_4/6'>Carazolol</scene>, was then added in a ball-and-stick format, colored orange.

Hoelzer Sandbox: Difference between revisions

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

Tools

@@ Line 21: / Line 21: @@
-Virtually any image of a protein that can be created in the computer environment of RP-RasMol, can be converted into a physical model of the protein using rapid prototyping technology.
+Virtually any image of a protein that can be created in the computer environment of RP-RasMol, can be converted into a physical model of the protein using rapid prototyping technology.  To design our model of the β2-adrenergic receptor, we used the atomic coordinates for this structure as reported in the pdb file 2rh1, from the Ray Stevens laboratory at the Scripps Research Institute.
-To design our model of the β2-adrenergic receptor, we used the atomic coordinates for this structure as reported in the pdb file 2rh1, from the Ray Stevens laboratory at the Scripps Research Institute.  Our model represents <scene name='Hoelzer_Sandbox/Image_1/1'>amino acids 29-230 and 263-342 </scene>.
+  * Our model represents <scene name='Hoelzer_Sandbox/Image_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/Image_2/1'>alpha-carbon backbone representation</scene>.
+Starting with a cpk-colored, spacefilled representation of the protein, we simplified this image by converting it to an <scene name='Hoelzer_Sandbox/Image_2/1'>alpha-carbon backbone representation</scene>.  We colored the seven trans-membrane alpha helices green --- connected by loops that we colored gray.
-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_4/7'>(Phe 193, Trp 286, Phe 289, and Phe 290)</scene> involved in the binding of a beta-blocker, and colored them blue.
+We then displayed four sidechains <scene name='Hoelzer_Sandbox/Spacefilled_4/7'>(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, <scene name='Hoelzer_Sandbox/Spacefilled_4/6'>Carazolol</scene>, was then added in a ball-and-stick format, colored orange.