Dear Modeller users!

I've followed 1st modeller tutorial making alignment of my target against 1 template (with the inclusion of hetatm from the template). As the result I've obtained the below alignment

>P1;2rh1A structureX:2rh1.pdb: 29 :A:+283 :A:::-1.00:-1.00 ---------DEVWVVGMGIVMS----------LIVLAIVFGNVLVITAIAKFERLQTVTNYFITSLACADLVMGL AVVPFGAAHILMKMWTFGNFWCEFWTSIDVLCVTASIETLCVIAVDRYFAITSPFKYQSLLTKNKARVIILMVWI VSGLTSFLPIQ-MH--WYRATHQE-----AINCYAEETCCDFFTNQAYAIASSIVSFYVPLVIMVFVYSRVFQEA KRQLKFCLKEHKALKTLGIIMGTFTLCWLPFFIVNIVHVIQDNLIRKEVYILLNWIGYVNSGFNPLIYC-RSPDF RIAFQELLCL------.*

>P1;od_r sequence:od_r: : : : ::: 0.00: 0.00 MEGKNLTSISECFLLGFSEQLEEQKPLFGSFLFMYLVTVAGNLLIILVIITDTQLHTPMYFFLANLSLADACFVS TTVPKMLANIQIQSQAISYSGCLLQLYFFMLFVMLEAFLLAVMAYDCYVAICHPLHYILIMSPGLCIFLVSASWI MNALHSLLHTLLMNSLSFCANHEIPHFFCDINPLLSLSCTDPFTNELVIFITGGLTGLICVLCLIISYTNVFSTI LKIPSA-QGKRKAFSTCSSHLSVVSLFFGTSFCVDFSSPSTHSAQKDTVASVMYTV--VTPMLNPFIYSLRNQEI KSSLRKLIWVRKIHSP-*

where Od_r is the modeled protein and 2rh1 is the template consisted of ligand ('.' in aliugn file)

now I'm running script for making models (where ligand should be included from the template and obtain error about atom mismatches

from modeller import * from modeller.automodel import *

# Read in HETATM records from template PDBs env.io.hetatm = True env.io.hydrogen= True # directories for input atom files env.io.atom_files_directory = ['.', './results']

env = environ() a = automodel(env, alnfile='result.ali', knowns='2rh1A', sequence='od_r', assess_methods=(assess.DOPE, assess.GA341)) a.starting_model = 1 a.ending_model = 10 a.make()

return f(self.modpt, io.modpt, self.env.libs.modpt, eqvdst) _modeller.ModellerError: read_te_290E> Number of residues in the alignment and pdb files are different: 283 282 For alignment entry: 1 2rh1A

how it could be fixed and obtain models with the ligands in the positions identical to the templates ?

James