This directory contains an example run in which 1ubq was redesigned allowing a
flexible backbone.

The command lines that were used are located at the top of the log files.

The files in this directory are:
--------------------------------------------------------------------------------
1ubq.pdb:  			Starting PDB structure.
1ubq_.fasta: 			Starting sequence.
ab1ubq*:			Fragments obtained as described in
				documentation/README.design,
1ubq_idl.pdb: 			Starting structure idealized to have ideal bond
				lengths and bond angles.
log_idealize: 			Log file for the simulation that was used to
				idealize 1ubq.pdb,
paths.txt:			Location of Rosetta's input files.
log_flexbb_design: 		Log file for the flexible backbone run.
da1ubq*:			Output PDB files - these files contain the final
				energies of the designed decoys.
da1ubq.fasc: 			A list of energies (scores) from all the runs.