Dear Modeller users,
I am trying to use this script for my aligment. But my target sequence is in Fasta format file,
can I use it also or should i convert it? Maybe someone could write me how can i get sucha a
file from fasa format.
thank you in advance
from modeller import *
env = environ()
aln = alignment(env)
mdl = model(env, file='file', model_segment=('FIRST:A','LAST:A'))
aln.append_model(mdl, align_codes='file', atom_files='file.pdb')
aln.append(file='Sirt1.ali', align_codes='Sirt1')
aln.align2d()
aln.write(file='file.ali', alignment_format='PIR')
aln.write(file='file.pap', alignment_format='PAP')
Best Regards,
Urszula Uciechowska
MSc.PhD Student
Medicinal Chemistry Group
University of Halle-Wittenberg