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ligand restraints can be computed by the prodrg server in SHELX format (http://davapc1.bioch.dundee.ac.uk/programs/prodrg/), you just need an pdb file of GTP, from the pdb for example.
This is what I've been using so far - but it only has the restraints, not the HFIX commands. It won't make a huge difference since the protein hydrogens are there, but there's no reason to leave them off the nucleotide other than I don't know where they go.
thanks, Nat
