Proteopedia:DIY:Scenes: Difference between revisions

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Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

Jaime Prilusky, Eran Hodis, Eric Martz

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 == Example: Tacrine, found on page [[1acj]]==
 <applet scene='Proteopedia:DIY:Scenes/Tacrine_1acj/1' size='250' align='right' />
+<ol start="8">
+<li>[load molecule] By PDB code, load 1acj.
+</li><li>Check "selection halos" beneath the molecule.
+</li><li>Click [select none] (button beneath the molecule).
+</li><li>[selections] "build your selection", click on group "all protein", [add to selection].
+</li><li>[colors] orange, 50% transparency. ''Rotate and zoom whenever you wish!''
+</li><li>[selections] "build your selection", limit to residue numbers 84,330, [replace selection].
+</li><li>[representations], check both ball-and-stick and cartoon, [set representation].
+</li><li>[colors], magenta.
+</li><li>[labels], select none, mouse click selects atom, click on an atom in the tacrine molecule (the spacefilled atoms), type ''Tacrine'' in the text slot, [set label]. Color label black, label size 20, pointer on.
+</li><li>Rotate and zoom to the orientation you want for the scene.
+</li><li>[save scene], give scene name and description, [save current scene].
+</li><li>Follow instructions in the box to copy and paste the green link into the main wikitext box above the SAT.
+</li><li>[hide] Scene authoring tools (SAT).
-*[load molecule] By PDB code, load 1acj
-*[selections] select none
+</li><li>[Save page].
-*[selections] "build your selection" choose group "all protein". add to selection
+</li><li>Click ''TextToBeDisplayed'' to display your scene.
-*[colors] orange 50% transparency
+</li><li>[edit this page], change ''TextToBeDisplayed'' to a description of the scene, [Save page].
-*[selections] "build your selection" limit to residues 84,330, replace selection
+</li></ol>
-*[representations] ball-and-stick and cartoon, set representation
-*[colors] magenta
-*[labels] select none, mouse click selects atom, click on atom in tacrine molecule, add label "tacrine", color label black, label size 20, pointer on
+Repeat the above cycle to add additional green links, or to modify the scene in any green link. Use [load scene] in the SAT to make changes to an existing scene.
-*[save scene] give scene name and description, save scene
+If you want a scene to be the default scene in Jmol when the page loads, copy the single-quoted scene ''name'' and paste it into the ''scene'' parameter of the Jmol &lt;Structure ... scene='...' &gt; tag.
+----
 Original scene by [[User:Eran_Hodis|Eran Hodis]]