Use the translate command to move one/both of the pdb molecules until
they superimpose. Just interpolate the distance depending on how many
frames you want to do and the distance separated.
Cheers,
JTM
We can be sure that if a detailed understanding of the molecular basis of
chemo-therapeutic
Hello:
Not exactly sure what you are asking here but if you want to calculate the
distance moved you could use the distance command:
distance atomx, atomy
to tell you how far atoms in the residues has moved.
you can also calculate dihedrals (ie/ X values) using the dihedral command
dihedral
Use the translate command to move selected parts of the protein. There
are lots of posts in the archives for more info.
Cheers,
JTM
We can be sure that if a detailed understanding of the molecular basis of
chemo-therapeutic activity were to be obtained, the advance of medicine
would be greatly
select [ligand name and/or chain] and n. [atom name]
For instance, if your ligand is chain c and you want to select the atom
named C21 in the pdb file:
select c. c n. c21
or if your ligand has a residue name like BME or something similar then
you could do:
select r. bme n. c21
Cheers,
JTM
I find mpeg encoder from Berkeley works fantastic and very fast. The only
problem is if you want to add frames from another source that may not be
exactly the same frame size. For just putting frames together I haven't
found anything faster or easier with a great quality output.
Cheers,
JTM
We
I believe that you need to make these new objects to correct the problem,
at least this is a quick fix that I have done in the past. There may be a
more elegant solution:
load my.pdb, obj1
load my.pdb, obj2
[whatever to each obj]
When loaded separately you don't have this problem.
Cheers,
JTM
