Figure 2 - full size

Figure 2. HinP1I-DNA interactions. (A) Summary of the protein-DNA contacts of HinP1I (green). Backbone mediated interactions are indicated with main chain amine (N) or carbonyl (O). For simplicity, only single water (w) molecule mediated interactions are shown. The A(3) base can be in either an intrahelical or extrahelical location (see text). (B) HinP1I side chains (green) in the major groove of the DNA duplex with a central GCGC site. The side chain of F91 intercalates DNA immediately outside of the recognition sequence, between the outer base pair of the recognition site (G:C) and the first base pair of the flanking DNA (A:T). (C-F) Detailed interactions with the recognition sequence GCGC. All interactions occur from the major groove side, except for the side chain of F15, which approaches the DNA from the minor groove.

The above figure is reprinted from an Open Access publication published by Oxford University Press: Nucleic Acids Res (2006, 34, 939-948) copyright 2006.