Inhibition of TBP binding to the TATA box by polyamide 3. (A) DNase I footprint of the radiolabeled D+6 DNA in the presence of DNA alone (lane 2); 40 nM polyamide 3 (lane 3); TBP (lane 4); and TBP and polyamide 3 at 3, 5, 10, 15, 20, 30, and 40 nM (lanes 5 to 11, respectively). Lane 1, G+A sequencing ladder. (B) Co-occupancy of TBP and polyamide 3. DNase I footprint of D+10 in the presence of DNA alone (lane 2); 40 nM polyamide 3 (lane 3); TBP (lane 4); and TBP and polyamide 3 at 3, 5, 10, 20, 30, and 40 nM (lanes 5 to 10, respectively). Lane 1, G+A sequencing ladder.