Hi, I docked dna with homeodomain protein formed from modeller
and get docked protein-dna complex.I want to incorporate water molecules
within homeodomain protein-dna complex which we observe in RCSB PDB file.Can it
be possible using
Hi soumi -
A command-line version of what David said is the following:
save new_complex.pdb, protein_selection or dna_selection
where `protein_selection` and `dna_selection` include all the atoms you want to
have in the final PDB. They could be object names if you have each protein and
the
Select the protein you want and the dna, then save the selection as a PDB.
There are many ways to make a selection; visually, the easiest might be:
You said you’ve removed the DNA from the protein-dna complex, so now you should
have:
(1) an object that has just your protein that you want in
Hi, I carry on my research work on protein-dna complex
system.I have one dna pdb and one protein-dna complex pdb.I want to make new
protein-dna complex pdb taking dna from single pdb and protein from
protein-dna complex.Protein possess similar DNA-binding specificities.I
superimpose two pdb
