User:Wayne Decatur/Sandbox Glutamate receptor: Difference between revisions
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As a result of the swapping and symmetry mismatch, there is subunit non-equivalence; even though all the chains are the same chemically, there are two distinct conformations of the subunits. This means there are two matching pairs of subunits. The pairs are illustrated on the left and the morphs referred to below will show on the right: | As a result of the swapping and symmetry mismatch, there is subunit non-equivalence; even though all the chains are the same chemically, there are two distinct conformations of the subunits. This means there are two matching pairs of subunits. The pairs are illustrated on the left and the morphs referred to below will show on the right: | ||
* <span style="color:forestgreen">Subunit '''A</span>''' is equivalent to <span style="color:cornflowerblue">Subunit '''C'''</span> A morph showing the relationship of the two equivalent subunits relative the axis of their symmetry. | * <span style="color:forestgreen">Subunit '''A</span>''' is equivalent to <span style="color:cornflowerblue">Subunit '''C'''</span>. A morph showing the relationship of the two equivalent subunits relative the axis of their symmetry. | ||
* <span style="color:red">Subunit '''B</span>''' is equivalent to <span style="color:#FFFF80">Subunit '''D'''</span> (<--says 'Subunit D' in hard-to-read gold color matching the structure) A morph showing the relationship of the two equivalent subunits relative the axis of their symmetry. | * <span style="color:red">Subunit '''B</span>''' is equivalent to Subunit '''D'''.<!--<span style="color:#FFFF80">Subunit '''D'''</span> (<--says 'Subunit D' in hard-to-read gold color matching the structure)--> A morph showing the relationship of the two equivalent subunits relative the axis of their symmetry. | ||
However, each of the subunit '''<span style="color:forestgreen">A</span>'''/<span style="color:cornflowerblue">'''C'''</span> group though is distinct from those of the <span style="color:red">'''B</span>'''/'''D''' group. Having established the two | However, each of the subunit '''<span style="color:forestgreen">A</span>'''/<span style="color:cornflowerblue">'''C'''</span> group though is distinct from those of the <span style="color:red">'''B</span>'''/'''D''' group. Having established the two equivalent groups we can simplify the discussion of the relationship between the two pairs by focusing solely on comparing <span style="color:forestgreen">Subunit '''A</span> and <span style="color:red">Subunit '''B</span>'''. | ||
The domains themselves stay relatively static between the two conformational forms, with the linkers in between and the resulting arrangement changing. This is best illustrated by superposition of the individual domains of <span style="color:forestgreen">Subunit '''A</span>''' and <span style="color:red">Subunit '''B</span>''': | The domains themselves stay relatively static between the two conformational forms, with the linkers in between and the resulting arrangement changing. This is best illustrated by superposition of the individual domains of <span style="color:forestgreen">Subunit '''A</span>''' and <span style="color:red">Subunit '''B</span>''': | ||
