August 27, 2012
Bay Area cryoEM Meeting, Santa Cruz
Show how to create an animation to show a morph between two conformations of a
ParM filament, morphing both the EM maps and fit molecular models.
Use EMDB maps
and PDB models
in ADP bound and unbound states.
Align maps 5128 and 5129.
Requires flipping one map end-to-end.
Use Fit in Map dialog.
Use Morph Map dialog to morph.
Grids of two maps must align.
vop resample #1 ongrid #0
Morph Map dialog Play.
Resize graphics window and Record.
windowsize 384 512
Playback in a movie player.
Use player loop option.
Make it slower by adding more frames.
Morph Map Options, step 0.02 gives 51 frames.
Record movie and playback.
Fetch 1mwm and 1mwk
Delete B chains.
Select / Chain / B, Actions / Atoms / Delete
Sequence based structure alignment.
MatchMaker dialog, match #5 to #4.
Note ADP ligand in 1mwm.
Morph Conformations dialog.
Add 1mwm, 1mwk and 1mwm to return to start, Create.
Simple domain motion.
Show ADP ligand.
Show 1mwm, select and hide ribbon.
Select ADP, Actions / Atom / show only.
Show as spheres.
Record movie. MD Movie File / Record.
Combined Map and Molecule Morph
Use commands to morph map and molecule at same time.