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| == Exploring the Structure ==
| | Hello and welcome to Proteopedia |
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| <font color="orange">Hydrophobic</font>
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| <applet load='1ema' size='300' frame='true' align='right' caption='GFP' />
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| 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 <scene name='Sandbox_11/Gfp_erice/1'>chromophore</scene> 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 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.
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| [[Image:Erice 11.gif |thumb| 300px]]
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| This is the member of the pyrimidine salvage pathway proteins. This phosphorylates uridine and cytidine. We can find the homologues of this protein in many species' genome(see KEGG[http://www.genome.ad.jp/dbget-bin/www_bget?enzyme+2.7.1.48]). However, this protein give us some questions. For example, many species have this protein homologues but don't have adenosine kinase homologue and inosine kinase homologue. This is the big question about nucleoside salvage pathway.
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| The structure of this protein is clear up only about human homologue.
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| This page show the human homologue's structure with the inhibitor, CTP (Red).
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| <scene name='Sandbox_11/Stick/1'>Stick model scene</scene>
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| <scene name='Sandbox_11/Secondary_structure/1'>Secondary structure scene</scene>
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| <scene name='Sandbox_11/1udw/3'>CTP is closed up scene</scene>
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| <scene name='Sandbox_11/2udw/1'>the charge scene</scene>
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