Figure 5.

Protein-DNA complexes with special features. Protein-DNA complex structures with (A) running-into-protein DNA, moloney murine leukemia virus reverse transcriptase-DNA complex (1D1U); (B) a crack in a double-stranded DNA, human DNA polymerase beta-DNA complex (1BPZ), DNA chains were colored to make the crack in the double helix more visible; (C) a flipped-out base, 8-oxoguanine DNA glycosylase-DNA complex (2NOB), and (D) multiple protein binding sites; NFAT and Jun and Fos bound to DNA (1A02). Default color scheme for displaying protein-DNA complex structures are: Blue (DNA major-groove atoms in contact with protein), Red (DNA minor-groove atoms in contact with protein), Brown (DNA backbone atoms), White (non-protein-contacting DNA bases), Yellow (protein residues in contact with DNA), and Green (non-DNA-contacting protein residues).