[modeller_usage] Modelling a nucleic acid ligand present in the PDB file

[Charlotte HABEGGER-POLOMAT <spationaute AT yahoo.fr>]

Hello!

Having obtained a satisfactory 3D model of my protein
using Modeller with structures known in the PDB for
three homologs, I would like to add a nucleic acid
ligand (a tRNA).

None of the three PDB structures I used contained the
nucleic acid, but I have other PDB files for one of
the three homologs with the same nucleic acid.

In the PDB files for the known protein/nucleic acid
complex, the coordinates for the nucleic acid are not
under HETATM residues but simply as ATOMS after the
protein coordinates.

What would be the simplest way to build a first quick
model of my protein with the tRNA just to get an idea
of the complex?

Thanks for any suggestions!

-Charlotte
(I am originally subscribed under
chpoloma AT rsvs.ulaval.ca)



	

	
		
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