Entering edit mode
12.9 years ago
Harpalss
▴
310
I am using the following code to generate a tetramer from a monomer using a tetramer template in Modeller.
Template tetramer = 2jgs.pdb Monomer = 2c4i.pdb
But my code only produces a monomer and not a tetramer.
env = environ()
#read pdb1 and pdb2 and creat and alignment between their sequences
aln = alignment(env)
mdl = model(env, file='2jgs.pdb')
aln.append_model(mdl=mdl, align_codes='2jgs', atom_files='2jgs')
mdl2 = model(env, file='2c4i.pdb')
aln.append_model(mdl=mdl2, align_codes='model1', atom_files='model1')
aln.write(file='2jgs_2jgs.ali')
z = (mdl.chains)
for i in z:
print i.name
print len(i.residues)
# Genereate and save structure=structure alignment
atmsel = selection(mdl.chains[i.name]).only_atom_types('CA')
r = atmsel.superpose(mdl2, aln,)
rms = r.rms
drms = r.drms
mdl2.write(file='model1_fit22.pdb')
Dear,
Shall you add the modification of the code, since I did not understand what you change to let the code create tetramer.
Thank you
Mr. Maytham