[Dock-fans] dock6 anion false hits
hongliang.dal at gmail.com
Wed Feb 27 22:05:10 PST 2008
Hi Dock Fans,
I do not understand why Dock6 gave me so many anion hits: false hits.
I prepared the acceptor from sybyl 7.3 (adding hydrogens, applied
kollman_all charge, manually modified the HIS around binding site to their
neutral state.) I can not see any positive charged residues around the
binding site. After I docked NCI compounds downloaded from ZINC website,
most of compounds in the top 500 hits are anions. Based on the biology
test results of some of the anion hits, those hits are false ones.
The acceptor prepared by Chimera "Dock Prep" tool gave similar docking
result: most of hits are anions. Did I miss something when I prepared my
grid? Any feedback is appreciate.
University of Manitoba
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