HIV-1　integrase　mediates　a　processed　viral　DNA　into　the　host　genome　DNA.　The　binding　modes　between　HIV-1　integrase　and　viral/host　DNA　have　not　been　clarified　until　now.　The　C-terminal　domain　of　integrase　has　been　found　to　be　a　DNA-binding　domain.　In　this　work,　we　have　explored　the　possible　DNA　binding　sites　of　dimeric　C-terminal　domain　by　docking　dinucleotides　to　HIV-1　integrase.　The　docking　results　suggest　that　two　symmetrical　DNA-binding　sites　are　likely　located　on　the　outside　surface　of　the　dimeric　C-terminal　domain　and　not　located　in　the　groove.　Those　sites　are　in　agreement　with　the　experimental　data.　(C)　2004　Elsevier　Ltd.　All　rights　reserved.