I used the rosetta3.4_membrane_homology_modeling to build a pdb file. but when I extract them from the silent file, my target pdb didn't looks like a normal protein, even like a jumble of segments.
Did I make a mistake?
the silent file was created by this command line: ~/rosetta3.4/rosetta_source/bin/minirosetta.linuxgccrelease @flags, and the flag file was attached.
to extract the pdb file from silent file by: ~/rosetta3.4/rosetta_source/bin/extract_pdbs.linuxgccrelease @convert.flags,and the convert.flag was also attached.
the created pdb file was attached in the third attachment. please help me~~~