Hi, I am new to modeller and I have trouble creating a homology model of a protein using model-loop-refine. I modified the model-loop-refine.py script as shown below and I got error messages. I would appreciate it if any one can give me any suggestion. Thanks.

from modeller import * from modeller.automodel import *

log.verbose() env = environ()

env.io.atom_files_directory = './:../atom_files'

# Create a new class based on 'loopmodel' so that we can redefine # select_loop_atoms class myloop(loopmodel): # This routine picks the residues to be refined by loop modeling def select_loop_atoms(self): return selection(self.residue_range('53:', '67:') (self.residue_range('89:', '96:') (self.residue_range('118:', '144:') (self.residue_range('166:', '177:') (self.residue_range('199:', '221:') (self.residue_range('243:', '254:'))

a = myloop(env, alnfile = 'seg.ali', # alignment filename knowns = '1u19A', # codes of the templates sequence = 'mrg1', # code of the target loop_assess_methods=assess.DOPE) # assess each loop with DOPE a.starting_model= 1 # index of the first model a.ending_model = 1 # index of the last model

a.loop.starting_model = 1 # First loop model a.loop.ending_model = 2 # Last loop model

a.make() # do modeling and loop refinement

This is the error: File "model-loop-refine.py", line 21 m = myloop(env, ^ SyntaxError: invalid syntax