Jmol/Superposition: Difference between revisions
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</jmol></nowiki> | </jmol></nowiki> | ||
We can also do a superposition of the two subunits in the dimer of a single structure, say 3HG5. This is shown here and the commands used to make this figure is below. | We can also do a superposition of the two subunits in the dimer of a single structure, say 3HG5. This is shown <scene name='79/794960/Dimer_difference/1'>here</scene> and the commands used to make this figure is below. | ||
<nowiki> | <nowiki> | ||
load 3HG5 | load 3HG5 | ||
compare {*:A} {*:B} SUBSET{*.CA} ATOMS{protein | compare {*:A} {*:B} SUBSET{*.CA} ATOMS{protein}{protein} ROTATE TRANSLATE | ||
select all; center selected | select all; center selected | ||
cartoon | cartoon only | ||
<nowiki> | <nowiki> | ||
This script compares (and superimposes) all C-alpha atoms of chain A with all of chain B. This script would not do a good job if - say - the first couple residues were missing in chain A abut not in chain B (because the atom pairs would not be matched up correctly). In this case, however, each subunit has the same residues in the same order, so it works nicely. | |||
</StructureSection> | </StructureSection> | ||
