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<StructureSection load="3lqq" size="400" color="" frame="true" spin="on" Scene='3lqq/Default/1' align="right" caption= > [[Image:3lqq.jpg|left|200px]] ===Structure of the CED-4 Apoptosome ([[3lqq]])=== {{ABSTRACT_PUBMED_20434985}} <!-- in Jmol application all I needed to do to load biomolecule, was to enter in the console: load 3lqq.pdb filter "biomolecule 1" Even easier for Proteopedia was to choose "biomolecule 1" under biomolecules from menu at top of Jmol menu. BUT IT DOESN"T SAVE THAT WAY in a proteopedia script. SO instead to get alpha carbons of biomolecule into Proteopedia, I went to page at RCSB PDB via link on the page and opened the biomolecule in Jmol (http://www.rcsb.org/pdb/explore/jmol.do?structureId=3LQQ&bionumber=1) and using SAVE option in Jmol menu, saved as 3lqqbiomolecule.pdb. [It actually took changing the name in the 'save as' name slot to get it to even allow saving. THIS IS JUST ALPHA-CARBONS FROM HERE!!!] Then I uploaded this multi-model file to Proteopedia [I had to remove <pre> tag at end and beginning in order to be able to upload to Proteopedia.] and when open, entered in the console, model all and then told it not to save as an animation. THIS IS JUST ALPHA-CARBONS + ATPs BECAUSE OF WAY I GOT IT BUT IT LOADS FAST!!! Remember, I could get full biological molecule from 'Download files' menu where I could select the 'biological assembly (gz)'. --> ==About this Structure== [[3lqq]] is a 2 chains structure with sequences from [http://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditis elegans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LQQ OCA]. <scene name='3lqq/Default/1'>The crystallographic asymmetric unit of the solved structure is an asymmetric dimer</scene> of CED-4. <scene name='3lqq/Morph/2'>Morph showing how each monomer in the asymmetric dimer relate to each other</scene>. Be sure to spin it around because <scene name='3lqq/Morphside/3'>from the side it is easier to see the dramatic difference</scene>.<br> {{Button Toggle AnimationOnPause}}<!--When Proteopedia updates to a version of Jmol that supports the Compare command, I should upload a new pdb file with chain as a model and chain b as a model in a single pdb file and then replace this scene with a scripted compare that just compares model 2 (chain b) to model 1 (chain a).--> <scene name='3lqq/Biomolecule1/4'>The biological molecule is an octamer (tetramer of the asymmetric dimer)</scene> that forms a shape similar to a funnel.<br> ==External Links== * [http://www.nature.com/nchina/2010/100707/full/nchina.2010.77.html '''Structural biology: The funnel of death''' by Felix Cheung] at Nature China. [[Category: Caenorhabditis elegans]] [[Category: Liu, Q.]] [[Category: Pang, Y.]] [[Category: Qi, S.]] [[Category: Shi, Y.]] [[Category: Yan, N.]] [[Category: Alternative splicing]] [[Category: Apoptosis]] [[Category: Apoptosome]] [[Category: Atp-binding]] [[Category: Ced4]] [[Category: Mitochondrion]] [[Category: Nucleotide-binding]] <br /> Created with the participation of [[User:Wayne Decatur|Wayne Decatur]], [[User:Eran Hodis|Eran Hodis]].

• Template:ABSTRACT PUBMED 20434985 (protected)
• Template:Abstract (protected)
• Template:Button Toggle AnimationOnPause

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