The HADDOCK category is meant to discuss any HADDOCK-related issue. For general information about HADDOCK refer to http://www.bonvinlab.org/software/haddock2.2
we are new to haddock, we are able to perform protein protein docking but we want to do protein RNA docking now. initially the server was not accepting the pdb file of RNA and giving us error like this
here was an inconsistency in your data
Second pdb file contains an unknown amino acid or nucleic acid base U
Make sure to use three letter code for bases and amino acid
we further install 3D dart in Linux based system and we got lots of gile as a output.
like dssr-hairpins, dss-rmultiplets , dssr-stems, dssr-junctions, dssr-loops etc
now we did docking using dssr-multiplex for three letter code of nucleotide bases, but still haddock is give same error as mentioned below, please help us regarding to this.