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Figure 4.
Figure 4: Role of the NKR finger in the DNA binding. a,
Schematic representation of the interactions with the DNA. Van
der Waals contacts to DNA are shown as a series of short,
parallel lines, and hydrogen bonds are shown as arrows. The
carbon atom at position 5 of C7' is marked with an asterisk in
this and subsequent panels. b, Close-up view of the
finger–double-stranded DNA interface in three-dimensional
stereo view. The NKR finger and thumb, coloured as in Fig. 1,
and bases (green) are shown in stick format. The double-stranded
DNA backbone is coloured brown and adjacent bases are
represented in PyMol cartoon format. Three water molecules shown
as red spheres mediate interactions, two of which are between
the finger and G7 and the other molecule coordinates the
backbone of the DNA and the side chains of Asn 489 and Arg 491.
The C5 carbon atom of the non-methylated C7' (marked with an
asterisk) is buried by the NKR finger and is within van der
Waals distances from side chain and backbone atoms of Asn 489.
For clarity, the side chain of Lys 490, which is solvent
exposed, is not shown.
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