User:Angel Herraez/Sandbox 7

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Current revision (10:26, 7 December 2024) (edit) (undo)
 
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==Your Heading Here (maybe something like 'Structure')==
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== Testing proposals for ligand focus ==
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<StructureSection load='1stp' size='400' side='right' caption='' scene=''>
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<StructureSection load='1hho' size='400' side='right' caption='initial display of hemoglobin' scene=''>
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<scene name='60/601886/Whole_dimer/5'>The whole dimer</scene>
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This is 1hho.pdb. The initial display is hemoglobin tetramer (biological assembly), but all green links will start with a fresh reload of the dimer (asymmetric unit).
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<scene name='60/601886/Heme_focus/4'>Focus on the heme group</scene>
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This is what the current green link for a ligand does: <scene name='60/601886/Ligand_current/1'>HEM</scene>. Highlights all the ligands with the same group name and focuses on their collective center.
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<scene name='60/601886/Phosphate/1'>Phosphate</scene>
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Proposals:
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A) Highlight only one ligand, <scene name='60/601886/Ligand_a/1'>HEM</scene>
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A2) Same with rotate best: <scene name='60/601886/Ligand_a2/1'>HEM</scene>
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<!-- The content below was inserted by the ConSurf template -->
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B) Highlight all, but focus on one <scene name='60/601886/Ligand_b/1'>HEM</scene>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|right|200px]]
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B2) Same with rotate best: <scene name='60/601886/Ligand_b2/1'>HEM</scene>
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Check
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Scripts are at [[Proteopedia_talk:Development]]
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Note: the scenes have custom captions, but they are not being displayed --something to fix.
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<scene name='60/601886/Focus_heme-2/1'>prueba 3</scene>
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<i class="fas fa-power-off"></i> &#x23FB; &#x23F6;&#x23F7;
<jmol>
<jmol>
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<jmolCheckbox>
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<jmolButton>
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<scriptWhenChecked>
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<script> </script>
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select protein; define ~consurf_to_do selected;
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<text> <i class="fas fa-power-off"></i>quality </text>
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consurf_initial_scene = true;
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</jmolButton>
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script /wiki/ConSurf/st/1stp_consurf.spt;
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</jmol>
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</scriptWhenChecked>
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<scriptWhenUnchecked>
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script /wiki/extensions/Proteopedia/spt/initialview01.spt;
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</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB].
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You may read the [[Conservation%2C_Evolutionary|explanation]]
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of the method and the full data available from
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[http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1stp ConSurf].
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<!-- end of content inserted by the ConSurf template -->
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<!-- above was inserted as
 
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{{subst:ConSurf|1stp|st}}
 
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-->
 
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Ligand in pocket, inital animation and then spinning:
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<scene name='60/601886/Bolsillo_girando/1'>version 1</scene>
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<scene name='60/601886/Bolsillo_girando/2'>version 2</scene>
</StructureSection>
</StructureSection>

Current revision

Testing proposals for ligand focus

initial display of hemoglobin

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

Angel Herraez

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