Sandbox GGC13: Difference between revisions

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Lactate dehydrogenase is a tetramer protein which can form five different isoenzymes.  Lactate dehydrogenase subunits exist primarily in two isoforms: M and H, which differ in a single residue.  The M subunit contains an alanine while the H subunit contains a glutamine.  The combination of subunits defines which isoenzyme is formed and indicates where the enzyme will be present in the body.  Lactate dehydrogenase A is composed of four M subunits.  The subunits can adopt two conformations, open and closed, which determine the subunits activity.   
Lactate dehydrogenase is a tetramer protein which can form five different isoenzymes.  Lactate dehydrogenase subunits exist primarily in two isoforms: M and H, which differ in a single residue.  The M subunit contains an alanine while the H subunit contains a glutamine.  The combination of subunits defines which isoenzyme is formed and indicates where the enzyme will be present in the body.  Lactate dehydrogenase A is composed of four M subunits.  The subunits can adopt two conformations, open and closed, which determine the subunits activity.   


The active site contains three different binding pockets to accommodate the substrate, Nicotinamide, and adenine. 
The substrate binding pocket relies on heavily on hydrogen binding and ionic interactions in order to effectively bind the substrate.  Upon substrate binding, the substrate binding pocket undergoes a conformation change where interactions between the substrate or inhibitor and a glutamine residue (Q99) essentially pull the active loop closed.
<scene name='78/781197/Oxamate/1'>Close up interactions between the substrate binding pocket and the inhibitor, oxamate.  The substrate active site to which oxamate is bound is in the closed conformation.</scene>
<scene name='78/781197/Oxamate/1'>Close up interactions between the substrate binding pocket and the inhibitor, oxamate.  The substrate active site to which oxamate is bound is in the closed conformation.</scene>


<scene name='78/781197/Nadh/1'>Close up interactions between the NADH and adenine binding pockets and the cofactor, NADH.</scene>
<scene name='78/781197/Nadh/1'>Close up interactions between the NADH and adenine binding pockets and the cofactor, NADH.</scene>


This is a sample scene created with SAT to <scene name="/12/3456/Sample/1">color</scene> by Group, and another to make <scene name="/12/3456/Sample/2">a transparent representation</scene> of the protein. You can make your own scenes on SAT starting from scratch or loading and editing one of these sample scenes.
<scene name='78/781197/Close up interactions between the inhibitor, oxamate and the cofactor, NADH./1'></scene>


</StructureSection>
</StructureSection>
== References ==
== References ==
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<references/>
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