The protein targets are not different. Currently the only Protein target is PTP (1BZH).
With LigandFit we have the ability to tell the graphics to show a different area of the protein target. This is why it looks like 2 differnt targets. In the next version of the graphics we hope to have the discription of the protein in the upper lefthand box to help explain what target you are looking at. ----------
" READ ME -=- New LigandFit version - NT_0.1.5 (2814) " http://forum.ud.com/ubbcgi/ultimatebb.cgi?ubb=get_topic;f=22;t=000053 ----- hit counter: You will now see a count of hits in the top right corner of the main application screen. As before this information only exists on the screen (and in the result file) and will not be shown in your stats.
The current LigandFit setup records a maximum of 8 hits for every Ligand processed. If more than 8 hits are found, the best 8 are recorded and returned in the result. -----