Sandbox jmu01 - Revision history

Amanda Storm at 19:17, 5 October 2015

Amanda Storm — Mon, 05 Oct 2015 19:17:45 GMT

←Older revision		Revision as of 19:17, 5 October 2015
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	Here I have highlighted key nonpolar residues in the <scene name='71/713483/Active_site_zoom/1'>active site</scene> that make van der Waals interactions with K13. The inhibitor has a longer hydrophobic region so it binds tighter here.		Here I have highlighted key nonpolar residues in the <scene name='71/713483/Active_site_zoom/1'>active site</scene> that make van der Waals interactions with K13. The inhibitor has a longer hydrophobic region so it binds tighter here.
-	<scene name='71/713483/~~Active_site_surface~~/2'>~~Here is a surface rendering~~</scene>	+	Here is a space-filling representation with <scene name='71/713483/Active_site_surface_hydrophobi/1'>polar and nonpolar coloring .</scene>

	{{Template:ColorKey_Hydrophobic}}, {{Template:ColorKey_Polar}}		{{Template:ColorKey_Hydrophobic}}, {{Template:ColorKey_Polar}}

Amanda Storm at 19:14, 5 October 2015

Amanda Storm — Mon, 05 Oct 2015 19:14:16 GMT

←Older revision		Revision as of 19:14, 5 October 2015
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-	==HIV Protease Inhibitor ==	+	Ć==HIV Protease Inhibitor ==
	<StructureSection load='3O99' size='340' side='right' caption='Caption for this structure' scene=''>		<StructureSection load='3O99' size='340' side='right' caption='Caption for this structure' scene=''>

Amanda Storm at 19:07, 5 October 2015

Amanda Storm — Mon, 05 Oct 2015 19:07:41 GMT

←Older revision		Revision as of 19:07, 5 October 2015
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	Here I have highlighted key nonpolar residues in the <scene name='71/713483/Active_site_zoom/1'>active site</scene> that make van der Waals interactions with K13. The inhibitor has a longer hydrophobic region so it binds tighter here.		Here I have highlighted key nonpolar residues in the <scene name='71/713483/Active_site_zoom/1'>active site</scene> that make van der Waals interactions with K13. The inhibitor has a longer hydrophobic region so it binds tighter here.
		+	<scene name='71/713483/Active_site_surface/2'>Here is a surface rendering</scene>

		+	{{Template:ColorKey_Hydrophobic}}, {{Template:ColorKey_Polar}}

	</StructureSection>		</StructureSection>
	== References ==		== References ==
	<references/>		<references/>

Amanda Storm at 18:59, 5 October 2015

Amanda Storm — Mon, 05 Oct 2015 18:59:53 GMT

←Older revision		Revision as of 18:59, 5 October 2015
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	This article describes the crystallization of HIV Protease with various inhibitors including the K13 inhibitor shown in this structure. <ref>http://dx.doi.org/10.1016/j.chembiol.2013.07.014</ref>		This article describes the crystallization of HIV Protease with various inhibitors including the K13 inhibitor shown in this structure. <ref>http://dx.doi.org/10.1016/j.chembiol.2013.07.014</ref>

-		+	Here I have highlighted key nonpolar residues in the <scene name='71/713483/Active_site_zoom/1'>active site</scene> that make van der Waals interactions with K13. The inhibitor has a longer hydrophobic region so it binds tighter here.

Amanda Storm at 18:41, 5 October 2015

Amanda Storm — Mon, 05 Oct 2015 18:41:49 GMT

←Older revision		Revision as of 18:41, 5 October 2015
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	This article describes the crystallization of HIV Protease with various inhibitors including the K13 inhibitor shown in this structure. <ref>http://dx.doi.org/10.1016/j.chembiol.2013.07.014</ref>		This article describes the crystallization of HIV Protease with various inhibitors including the K13 inhibitor shown in this structure. <ref>http://dx.doi.org/10.1016/j.chembiol.2013.07.014</ref>

-	<scene name='71/713483/Rainbow/1'>scene</scene>
-	{{STRUCTURE_3O99 \| PDB=3O99}}


-	This is a sample scene created with SAT to <scene name="/12/3456/Sample/1">color</scene> by Group, and another to make <scene name="/12/3456/Sample/2">a transparent representation</scene> of the protein. You can make your own scenes on SAT starting from scratch or loading and editing one of these sample scenes.

	</StructureSection>		</StructureSection>
	== References ==		== References ==
	<references/>		<references/>

Amanda Storm at 18:27, 5 October 2015

Amanda Storm — Mon, 05 Oct 2015 18:27:47 GMT

←Older revision		Revision as of 18:27, 5 October 2015
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-	~~You may include any references to papers as in:~~ the ~~use~~ of ~~JSmol~~ in ~~Proteopedia~~ <ref>~~DOI~~ 10.~~1002~~/~~ijch~~.~~201300024~~</ref> ~~or to the article describing Jmol <ref>PMID:21638687</ref> to the rescue.~~	+	This article describes the crystallization of HIV Protease with various inhibitors including the K13 inhibitor shown in this structure. <ref>http://dx.doi.org/10.1016/j.chembiol.2013.07.014</ref>
-		+
-	~~== Function ==~~	+
-	~~[[Image:MW_Folding_Simulations.gif]]~~	+

	<scene name='71/713483/Rainbow/1'>scene</scene>		<scene name='71/713483/Rainbow/1'>scene</scene>

Amanda Storm at 18:23, 5 October 2015

Amanda Storm — Mon, 05 Oct 2015 18:23:19 GMT

←Older revision		Revision as of 18:23, 5 October 2015
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-	==HIV Protease Inhibitor ~~(maybe something like 'Structure')~~==	+	==HIV Protease Inhibitor ==
	<StructureSection load='3O99' size='340' side='right' caption='Caption for this structure' scene=''>		<StructureSection load='3O99' size='340' side='right' caption='Caption for this structure' scene=''>
-	~~This is~~ a ~~default text for your page~~ ''~~'Sandbox jmu01'''. Click above on '''edit this page''' to modify. Be careful with~~ the ~~< and > signs~~.	+
		+	We can clean up the structure some by creating a view
		+	<scene name='71/713483/Start/1'>without the solvent molecules</scene>.
		+
		+
	You may include any references to papers as in: the use of JSmol in Proteopedia <ref>DOI 10.1002/ijch.201300024</ref> or to the article describing Jmol <ref>PMID:21638687</ref> to the rescue.		You may include any references to papers as in: the use of JSmol in Proteopedia <ref>DOI 10.1002/ijch.201300024</ref> or to the article describing Jmol <ref>PMID:21638687</ref> to the rescue.

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	<scene name='71/713483/Rainbow/1'>scene</scene>		<scene name='71/713483/Rainbow/1'>scene</scene>
-	{{STRUCTURE_3O99 \| PDB=~~2DQX~~}}	+	{{STRUCTURE_3O99 \| PDB=3O99}}

Amanda Storm at 13:11, 5 October 2015

Amanda Storm — Mon, 05 Oct 2015 13:11:04 GMT

←Older revision		Revision as of 13:11, 5 October 2015
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-	==~~Your Heading Here~~ (maybe something like 'Structure')==	+	==HIV Protease Inhibitor (maybe something like 'Structure')==
-	<StructureSection load='~~2dqx~~' size='340' side='right' caption='Caption for this structure' scene=''>	+	<StructureSection load='3O99' size='340' side='right' caption='Caption for this structure' scene=''>
	This is a default text for your page '''Sandbox jmu01'''. Click above on '''edit this page''' to modify. Be careful with the < and > signs.		This is a default text for your page '''Sandbox jmu01'''. Click above on '''edit this page''' to modify. Be careful with the < and > signs.
	You may include any references to papers as in: the use of JSmol in Proteopedia <ref>DOI 10.1002/ijch.201300024</ref> or to the article describing Jmol <ref>PMID:21638687</ref> to the rescue.		You may include any references to papers as in: the use of JSmol in Proteopedia <ref>DOI 10.1002/ijch.201300024</ref> or to the article describing Jmol <ref>PMID:21638687</ref> to the rescue.
Line 8:		Line 8:

	<scene name='71/713483/Rainbow/1'>scene</scene>		<scene name='71/713483/Rainbow/1'>scene</scene>
-	{{~~STRUCTURE_2DQX~~ \| PDB=2DQX}}	+	{{STRUCTURE_3O99 \| PDB=2DQX}}

-	== Disease ==
-
-	== Relevance ==
-
-	== Structural highlights ==

	This is a sample scene created with SAT to <scene name="/12/3456/Sample/1">color</scene> by Group, and another to make <scene name="/12/3456/Sample/2">a transparent representation</scene> of the protein. You can make your own scenes on SAT starting from scratch or loading and editing one of these sample scenes.		This is a sample scene created with SAT to <scene name="/12/3456/Sample/1">color</scene> by Group, and another to make <scene name="/12/3456/Sample/2">a transparent representation</scene> of the protein. You can make your own scenes on SAT starting from scratch or loading and editing one of these sample scenes.

Amanda Storm at 03:04, 22 September 2015

Amanda Storm — Tue, 22 Sep 2015 03:04:09 GMT

←Older revision		Revision as of 03:04, 22 September 2015
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	[[Image:MW_Folding_Simulations.gif]]		[[Image:MW_Folding_Simulations.gif]]

-	<scene name='71/713483/Rainbow/1'>~~TextToBeDisplayed~~</scene>	+	<scene name='71/713483/Rainbow/1'>scene</scene>
		+	{{STRUCTURE_2DQX \| PDB=2DQX}}
		+
	== Disease ==		== Disease ==

Amanda Storm at 02:41, 22 September 2015

Amanda Storm — Tue, 22 Sep 2015 02:41:47 GMT

←Older revision		Revision as of 02:41, 22 September 2015
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	== Function ==		== Function ==
	[[Image:MW_Folding_Simulations.gif]]		[[Image:MW_Folding_Simulations.gif]]
		+
		+	<scene name='71/713483/Rainbow/1'>TextToBeDisplayed</scene>
	== Disease ==		== Disease ==