|
|
Line 1: |
Line 1: |
- | <StructureSection size='350' side='right' scene='88/886517/Test/1'> | + | ==Receptor ligand interaction== |
| + | <StructureSection load='' size='350' side='right' caption='' scene='88/886517/Overall/1'> |
| | | |
- | <scene name='88/886517/Test/1'>Initial scene reload</scene> | + | <scene name='88/886517/Overall/1'>First scene</scene> |
- | | + | |
- | This green link is a <jmolLink> that directly loads an uploaded script (a modified state script).
| + | |
- | When the script is dropped into Jmol.jar 14.31.8 (current main version in Proteopedia) it works (3 unrecognized but harmless set commands) even though the script was written from JSmol 14.32.64.
| + | |
- | | + | |
- | When this green link is clicked, an error is reported in the JSmol Javascript Console. I do not understand what causes this error.
| + | |
- | | + | |
- | <jmol>
| + | |
- | <jmolLink>
| + | |
- | <script>
| + | |
- | load /wiki/images/2/21/1sva-half-capsid-distance.spt
| + | |
- | </script>
| + | |
- | <text>1sva half capsid colored by distance</text>
| + | |
- | </jmolLink>
| + | |
- | </jmol>
| + | |
- | | + | |
- | <jmol>
| + | |
- | <jmolLink>
| + | |
- | <script>script /scripts/37/376372/Overall/3.spt; hide water; set zshade off; spin off;</script>
| + | |
- | <text>lyso</text>
| + | |
- | </jmolLink>
| + | |
- | </jmol>
| + | |
- | | + | |
- | The load command in the script loads a "frozen" uploaded PDB file [[Image:1sva-revdat2009.pdb.gz]].
| + | |
- | When that command is run in the Proteopedia JSmol console, the virus capsid loads correctly.
| + | |
- | | + | |
- | Here is an extremely simplified script:
| + | |
- | <small><pre>
| + | |
- | set autobond false;
| + | |
- | load "https://proteopedia.org/wiki/images/2/29/1sva-revdat2009.pdb.gz" FILTER "*.CA;biomolecule 1;bmchains;/=5";
| + | |
- | spacefill 4.0;
| + | |
- | color chain;
| + | |
- | </pre></small>
| + | |
- | When the above 4 commands are copied and pasted into the JSmol console and run, they work.
| + | |
- | | + | |
- | However, when a .spt file containing those commands is dropped into JSmol, the capsid loads, but the spacefill and color commands do not execute. I don't know why they fail.
| + | |
- | | + | |
- | | + | |
- | <!--
| + | |
- | OBSOLETE - FAILS TO LOAD: <scene name='85/859610/Half_capsid_spt_minus_props/1'>Half Capsid by Script</scene>: Scene created by dropping half-capsid-nodata.spt into JSmol after first loading 1sva. State script load command modified to
| + | |
- | load "" FILTER "*.CA;biomolecule 1;bmchains;/=5"; and function _setDataState() made an empty function {} (previously it assigned distances from center to each of ~25,000 alpha carbons).
| + | |
- | -->
| + | |
- | | + | |
- | </StructureSection> | + | |
- | | + | |
- | <Structure load='https://proteopedia.org/wiki/images/8/80/Initial_scene.spt' size='350' frame='true' align='right' caption='Insert caption here' scene='Insert optional scene name here' />
| + | |
- | | + | |
- | ==Your Heading Here (maybe something like 'Structure')==
| + | |
- | <StructureSection load='3rec' size='350' side='right' caption='Escherichia coli reca protein-bound DNA (PDB entry [[3rec]])' scene=''>
| + | |
- | | + | |
- | Anything in this section will appear adjacent to the 3D structure and will be scrollable.
| + | |
| | | |
| + | <scene name='88/886517/Pocket/1'>Second scene |
| + | </scene> |
| </StructureSection> | | </StructureSection> |