Sandbox 5

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Revision as of 12:14, 2 April 2008 (edit) Student (Talk | contribs) (New page: <applet load="1v04" size="400" frame="true" align="right" /> ==Paraoxonase 1 by directed evolution== This is a placeholder text to help you get started in placing a Jmol applet on your p...) ← Previous diff		Revision as of 07:38, 15 May 2008 (edit) (undo) Alexander Berchansky (Talk | contribs) Next diff →
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-	<applet load="1v04" size="400" frame="true" align="right" />	+	You can take a close look at the chromophore of '''GFP''' in the PDB entry [[1ema]]. The backbone of the entire protein is shown here on the left. The protein chain forms a cylindrical can (shown in blue), with one portion of the strand threading straight through the middle (shown in green). The chromophore is found right in the middle of the can, totally shielded from the surrounding environment. This shielding is essential for the fluorescence. The jostling water molecules would normally rob the chromophore of its energy once it absorbs a photon. But inside the protein, it is protected, releasing the energy instead as a slightly less energetic photon of light. The chromophore (shown in the close-up on the right) forms spontaneously from three amino acids in the protein chain: a glycine, a tyrosine and a threonine (or serine). Notice how the glycine and the threonine have formed a new bond, creating an unusual five-membered ring.
-	==Paraoxonase 1 by directed evolution==	+	This picture was created with RasMol. You can create similar pictures by clicking on the accession code above and then picking one of the options under View Structure. The chromophore is called "CRO" in this file, and it is residue number 66 in the protein chain.
-	This is a placeholder text to help you get started in	+
-	placing a Jmol applet on your page. At any time, click	+
-	"Show Preview" at the bottom of this page to see how it goes.	+
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-	Replace the PDB id after the load=" to load and display	+
-	another structure.	+

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Revision as of 07:38, 15 May 2008

You can take a close look at the chromophore of GFP in the PDB entry 1ema. The backbone of the entire protein is shown here on the left. The protein chain forms a cylindrical can (shown in blue), with one portion of the strand threading straight through the middle (shown in green). The chromophore is found right in the middle of the can, totally shielded from the surrounding environment. This shielding is essential for the fluorescence. The jostling water molecules would normally rob the chromophore of its energy once it absorbs a photon. But inside the protein, it is protected, releasing the energy instead as a slightly less energetic photon of light. The chromophore (shown in the close-up on the right) forms spontaneously from three amino acids in the protein chain: a glycine, a tyrosine and a threonine (or serine). Notice how the glycine and the threonine have formed a new bond, creating an unusual five-membered ring.

This picture was created with RasMol. You can create similar pictures by clicking on the accession code above and then picking one of the options under View Structure. The chromophore is called "CRO" in this file, and it is residue number 66 in the protein chain.