I’m trying to dock a 20 bp DNA with a Protein. I have prepared the DNA from haddock dna modelling server and trying to dock it with a multimeric protein’s crystal structure.
However, the docking fails repeatedly saying “First pdb file contains multiple chains with overlapping numbering: A5 - B5”
Is it not possible to run docking with multiple chain containing protein ?
Please help me out here. I’m keeping the protein and DNA file here https://drive.google.com/drive/folders/0B6O-L5Y7BiGJQ1FIc2tIRFE2dE0