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. 2003 Dec 1;31(23):6806–6818. doi: 10.1093/nar/gkg908

Figure 5.

Figure 5

Sequence-dependent changes on the surfaces of the bulged-G motif (S1). Space-filling presentations of the minor groove (left) and major groove (center) surfaces of the three classes of the motif, with the corresponding sequences (right): (a) AC/YY (CG-SRL), (b) AA/YY/(YY) [from PDB entry 480D (19)] and (c) AA/RR [from PDB entry 1JJ2 (1,10)]. Base hydrogen bond donor (green) and acceptor (yellow) groups are shown, as are base hydrophobic (purple) and 2′-hydroxyl (blue) groups. Underlined and outlined bases in the sequences are labeled in the major and minor grooves, respectively.