assume, I have a PDB file template with some residues missing, e.g. 5 Amino
acids at the beginning, 10 in the middle and 2 at the end of the sequence.
Now, I use Modeller to complete the template (I align the PDB to its
sequence) and use it for homology modelling.
Is this a common procedure? What do you think about it? Will the completed
template be reliable or should I leave the gaps of the template unfixed in
homology modelling?
Thanks in advance,
Christoph Nimptsch
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Christoph Nimptsch
Apotheker
Pharmazeutisches Institut
Arbeitskreis Prof. Kovar
Universität Tübingen
Auf der Morgenstelle 8
D-72076 Tuebingen
Tel.: 07071 / 29 73047
Fax.: 07071 / 29 2470
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