User:Karsten Theis/Animation course: Difference between revisions
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Open <jmol><jmolLink><script>script "http://proteopedia.org/scripts/52/520489/Ligand_pocket/2.spt"; x1 = script("show moveto")[11][0]; rotate y 90; x2 = script("show moveto")[11][0]; rotate x -90;x3 = script("show moveto")[11][0]; rotate y -90;x4 = script("show moveto")[11][0]; speed = "moveto 2.0"; script inline @{speed + x1}</script><text>mu opioid receptor</text></jmolLink></jmol> and use your skills learned from the [[viewing guide]] to explore the scene. | Open <jmol><jmolLink><script>script "http://proteopedia.org/scripts/52/520489/Ligand_pocket/2.spt"; x1 = script("show moveto")[11][0]; rotate y 90; x2 = script("show moveto")[11][0]; rotate x -90;x3 = script("show moveto")[11][0]; rotate y -90;x4 = script("show moveto")[11][0]; speed = "moveto 2.0"; script inline @{speed + x1}</script><text>mu opioid receptor</text></jmolLink></jmol> and use your skills learned from the [[viewing guide]] to explore the scene. | ||
1. Choose a background | 1. Choose a background: <jmol> | ||
<jmol> | |||
<jmolRadioGroup> | <jmolRadioGroup> | ||
<item> | <item> | ||
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2. How, if it all, do you want to show the protein? | 2. How, if it all, do you want to show the protein? <jmol> | ||
<jmol> | |||
<jmolRadioGroup> | <jmolRadioGroup> | ||
<item> | <item> | ||
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</jmol> | </jmol> | ||
3. How do you want the opioid to look like? <jmol> | |||
3. How do you want the opioid to look like? | |||
<jmol> | |||
<jmolRadioGroup> | <jmolRadioGroup> | ||
<item> | <item> | ||
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</jmol> | </jmol> | ||
<jmol> | 4. Other choices: <jmol> | ||
<jmolCheckbox> | <jmolCheckbox> | ||
<scriptWhenChecked>slab on; depth 40; var a = [80,70,65,63,62]; for(var i IN a) {slab @i; delay 0.4;};</scriptWhenChecked> | <scriptWhenChecked>slab on; depth 40; var a = [80,70,65,63,62]; for(var i IN a) {slab @i; delay 0.4;};</scriptWhenChecked> | ||
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===Save some orientations=== | ===Save some orientations=== | ||
Every time you find an orientation (rotation, translation, zoom), click a different one of these links. You can restore the orientation by clicking on the link in the next section. | |||
<jmol><jmolLink><script>x1 = script("show moveto")[11][0]</script><text>view 1</text></jmolLink> </jmol> | <jmol><jmolLink><script>x1 = script("show moveto")[11][0]</script><text>view 1</text></jmolLink> </jmol> | ||
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Go to different views: | Go to different views: | ||
<jmol><jmolLink><script>script inline @{speed + x1}</script><text> | <jmol><jmolLink><script>script inline @{speed + x1}</script><text>retrieve 1</text></jmolLink></jmol> | ||
<jmol><jmolLink><script>script inline @{speed + x2}</script><text>retrieve 2</text></jmolLink></jmol> | |||
<jmol><jmolLink><script>script inline @{speed + x3}</script><text>retrieve 3</text></jmolLink></jmol> | |||
<jmol><jmolLink><script>script inline @{speed + x4}</script><text>retrieve 4</text></jmolLink></jmol> | |||
Animate between the four views: | Animate between the four views: | ||
<jmol><jmolLink><script>script inline @{speed + x2}; delay 0.2; script inline @{speed + x3}; delay 0.2; script inline @{speed + x4}; delay 0.2; script inline @{speed + x1}; delay 0.2; </script><text>start animation</text></jmolLink></jmol> | <jmol><jmolLink><script>script inline @{speed + x2}; delay 0.2; script inline @{speed + x3}; delay 0.2; script inline @{speed + x4}; delay 0.2; script inline @{speed + x1}; delay 0.2; </script><text>start animation</text></jmolLink></jmol> | ||
<jmol><jmolLink><script>show console; show speed; show speed+x1; show x2; show x3; show x4</script><text>show animation script</text></jmolLink></jmol> | |||
==Dock a ligand== | ==Dock a ligand== | ||
