FIGURE 2.

Structure-based alignment of BET family bromodomains and sequence conservation. A, secondary structure display and sequence alignment of Brd4 bromodomains. Residues of BD1 that interact with acetylated lysine are marked. B, sequence alignment of bromodomains from the BET family and structure-based alignment to other known bromodomains. The secondary structure elements as determined for Brd4 BD2 are printed on top. C, display of the sequence conservation on the structure of Brd4 BD2. The ribbon plot and surface depiction reveal the accumulation of conserved residues (colored red) at the recognition cavity for acetylated lysines.