User:Karsten Theis/Animation course

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<StructureSection load='' size='340' side='right' caption='' scene='52/520489/Ligand_pocket/2'>
<StructureSection load='' size='340' side='right' caption='' scene='52/520489/Ligand_pocket/2'>
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==Learn how to animate with Jmol==
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==Animate a scene with Jmol==
 +
 
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===Load the scene and choose a look===
<scene name='52/520489/Ligand_pocket/2'>mu opioid receptor</scene>
<scene name='52/520489/Ligand_pocket/2'>mu opioid receptor</scene>
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<jmol><jmolLink><script>console; show moveto</script><text>orientation</text></jmolLink> </jmol>
<jmol><jmolLink><script>console; show moveto</script><text>orientation</text></jmolLink> </jmol>
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<jmol><jmolLink><script>select BF0;spacefill only;spacefill 0.4;wireframe 0.15</script><text>ball andstick</text></jmolLink> </jmol>
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<jmol><jmolLink><script>select BF0;spacefill only;spacefill 0.4;wireframe 0.15</script><text>ball and stick</text></jmolLink> </jmol>
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<jmol><jmolLink><script>select BF0;spacefill only;</script><text>ball andstick</text></jmolLink> </jmol>
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<jmol><jmolLink><script>select BF0;spacefill only;</script><text>spacefill</text></jmolLink> </jmol>
<jmol>
<jmol>
<jmolLink>
<jmolLink>
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<script> slab on; depth 40; var a = [80,70,60,55,53,52]; for(var i IN a) {slab @i; delay 0.4;}; script "http://proteopedia.org/wiki/images/7/76/Wobble.spt"
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<script> slab on; depth 40; var a = [80,70,65,63,62]; for(var i IN a) {slab @i; delay 0.4;};
</script>
</script>
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<text>Shave away and wobble</text>
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<text>Shave away</text>
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</jmolLink>
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</jmol>
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<jmol>
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<jmolLink>
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<script> slab off;
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</script>
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<text>Everything</text>
</jmolLink>
</jmolLink>
</jmol>
</jmol>
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<jmol><jmolLink><script>select protein; color structure</script><text>helix</text></jmolLink> </jmol>
<jmol><jmolLink><script>select protein; color structure</script><text>helix</text></jmolLink> </jmol>
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===Save some orientations===
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 +
<jmol><jmolLink><script>x1 = script("show moveto")[11][0]</script><text>view 1</text></jmolLink> </jmol>
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<jmol><jmolLink><script>x2 = script("show moveto")[11][0]</script><text>view 2</text></jmolLink> </jmol>
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<jmol><jmolLink><script>x3 = script("show moveto")[11][0]</script><text>view 3</text></jmolLink> </jmol>
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<jmol><jmolLink><script>x4 = script("show moveto")[11][0]</script><text>view 4</text></jmolLink> </jmol>
 +
 +
 +
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x = script("show moveto")[11][0]
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speed = "moveto 4.0"
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script inline @{speed + x}
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 +
===Transition between orientations===
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Select a transition speed: <jmol><jmolLink><script>speed = "moveto 1.0"</script><text>1 sec</text></jmolLink> <jmol><jmolLink><script>speed = "moveto 2.0"</script><text>2 sec</text></jmolLink> <jmol><jmolLink><script>speed = "moveto 4.0"</script><text>4 sec</text></jmolLink> <jmol><jmolLink><script>speed = "moveto 10.0"</script><text>10 sec</text></jmolLink> </jmol>
 +
 +
Go to different views:
 +
<jmol><jmolLink><script>script inline @{speed + x1}</script><text>V1</text></jmolLink> <jmol><jmolLink><script>script inline @{speed + x2}</script><text>V2</text></jmolLink> <jmol><jmolLink><script>script inline @{speed + x3}</script><text>V3</text></jmolLink> <jmol><jmolLink><script>script inline @{speed + x4}</script><text>V4</text></jmolLink>
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<script type="text/javascript">
 
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jmolBr()
 
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Jmol.setButtonCss(null,"style='width:120px'")
 
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jmolButton("color cpk")
 
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jmolButton("color group")
 
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jmolButton("color amino")
 
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jmolButton("color structure")
 
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jmolBr()
 
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jmolButton("trace only")
 
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jmolButton("cartoon only")
 
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jmolButton("backbone only")
 
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jmolButton("spacefill only;spacefill 23%;wireframe 0.15","ball&stick")
 
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jmolBr()
 
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Jmol.setButtonCss(null,"style='width:60px'")
 
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jmolButton("Model")
 
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Jmol.setButtonCss(null,"style='width:50px'")
 
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jmolButton("model; if (!isDssp) { save structure s1; isDssp = true; calculate structure DSSP;cartoons only;color structure}", "DSSP")
 
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Jmol.setButtonCss(null,"style='width:50px'")
 
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jmolButton("model; if (isDssp) { restore structure s1; isDssp = false; cartoons only;color structure}", "Auth")
 
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Jmol.setButtonCss(null,"style='width:160px'")
 
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jmolButton("Ramachandran relative")
 
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jmolButton("Quaternion difference")
 
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jmolBr()
 
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Jmol.setButtonCss(null,"style='width:100px'")
 
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jmolButton("console")
 
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Jmol.jmolCommandInput(jmolApplet0)
 
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</script>
 
==Collection of molecules==
==Collection of molecules==

Revision as of 22:20, 12 September 2019

Drag the structure with the mouse to rotate

References

Proteopedia Page Contributors and Editors (what is this?)

Karsten Theis

Retrieved from "http://52.214.119.220/wiki/index.php/User:Karsten_Theis/Animation_course"
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