Jmol/Interactivity: Difference between revisions
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You can associate a couple of commands with a green link (instead of the usual behavior of a green link to load a new scene). For example, the link below make parts of the structure "blink": | You can associate a couple of commands with a green link (instead of the usual behavior of a green link to load a new scene). For example, the link below make parts of the structure "blink": | ||
To show ligand(s), click on the sun | To show ligand(s), click on the sun symbol in the parentheses (<jmol> | ||
<jmolLink> | <jmolLink> | ||
<script> select ligand; selectionHalos ON; delay 0.5;selectionHalos OFF;</script> | <script> select ligand; selectionHalos ON; delay 0.5;selectionHalos OFF;</script> | ||
| Line 35: | Line 35: | ||
<nowiki> | <nowiki> | ||
( | (<jmol> | ||
<jmolLink> | <jmolLink> | ||
<script> select ligand; selectionHalos ON; | <script> select ligand; selectionHalos ON; | ||
| Line 50: | Line 50: | ||
<jmol> | <jmol> | ||
<jmolCheckbox> | <jmolCheckbox> | ||
< | <scriptWhenUnChecked>hide ligand or hidden</scriptWhenChecked> | ||
< | <scriptWhenchecked>hide hidden and not ligand</scriptWhenUnchecked> | ||
<checked>true</checked> | <checked>true</checked> | ||
<text>ligand</text> | <text>ligand</text> | ||
| Line 65: | Line 65: | ||
<text>ligand</text> | <text>ligand</text> | ||
</jmolCheckbox> | </jmolCheckbox> | ||
</jmol> | |||
</nowiki> | |||
===Radio button=== | |||
This set of buttons selects one side chain to be shown (or none). | |||
<jmol> | |||
<jmolRadioGroup> | |||
<item> | |||
<script>select sidechain; spacefill off; select sidechain and 35 ; spacefill on</script> | |||
<text>Residue 35</text> | |||
<checked>false</checked> | |||
</item> | |||
<item> | |||
<script>select sidechain; spacefill off; select sidechain and 52 ; spacefill on</script> | |||
<text>Residue 52</text> | |||
<checked>false</checked> | |||
</item> | |||
<item> | |||
<script>select sidechain; spacefill off</script> | |||
<text>No side chains</text> | |||
<checked>true</checked> | |||
</item> | |||
</jmolRadioGroup> | |||
</jmol> | |||
<nowiki> | |||
<jmol> | |||
<jmolRadioGroup> | |||
<item> | |||
<script>select sidechain; spacefill off; select sidechain and 35 ; spacefill on</script> | |||
<text>Residue 35</text> | |||
<checked>false</checked> | |||
</item> | |||
<item> | |||
<script>select sidechain; spacefill off; select sidechain and 52 ; spacefill on</script> | |||
<text>Residue 52</text> | |||
<checked>false</checked> | |||
</item> | |||
<item> | |||
<script>select sidechain; spacefill off</script> | |||
<text>No side chains</text> | |||
<checked>true</checked> | |||
</item> | |||
</jmolRadioGroup> | |||
</jmol> | </jmol> | ||
</nowiki> | </nowiki> | ||
Revision as of 12:22, 19 June 2020
<StructureSection load='1d9z' size='340' side='right' caption='Structure of UvrB in complex with ATP' scene=>
Interactive Jmol elements
Some pages contain buttons, radio buttons and other elements that allow the reader to manipulate the 3D Jmol scene by clicking on them.
Button
This button loads a different molecule and scene, and makes sure waters and hidden and zshade is turned off:
The following code was used to build the button and make it work:
<jmol>
<jmolButton>
<script>script /scripts/37/376372/Overall/3.spt;
hide water; set zshade off</script>
<text>Lysozyme</text>
</jmolButton>
</jmol>
Link
You can associate a couple of commands with a green link (instead of the usual behavior of a green link to load a new scene). For example, the link below make parts of the structure "blink":
To show ligand(s), click on the sun symbol in the parentheses ()
(<jmol>
<jmolLink>
<script> select ligand; selectionHalos ON;
delay 0.5; selectionHalos OFF;</script>
<text>☼</text>
</jmolLink>
</jmol>)
Check box
This checkbox shows the ligand only when checked.
XML error: Mismatched tag at line 3
<jmol>
<jmolCheckbox>
<scriptWhenChecked>hide ligand or hidden</scriptWhenChecked>
<scriptWhenUnchecked>hide hidden and not ligand</scriptWhenUnchecked>
<checked>true</checked>
<text>ligand</text>
</jmolCheckbox>
</jmol>
Radio button
This set of buttons selects one side chain to be shown (or none).
<jmol>
<jmolRadioGroup>
<item>
<script>select sidechain; spacefill off; select sidechain and 35 ; spacefill on</script>
<text>Residue 35</text>
<checked>false</checked>
</item>
<item>
<script>select sidechain; spacefill off; select sidechain and 52 ; spacefill on</script>
<text>Residue 52</text>
<checked>false</checked>
</item>
<item>
<script>select sidechain; spacefill off</script>
<text>No side chains</text>
<checked>true</checked>
</item>
</jmolRadioGroup>
</jmol>
