Figure 2.
Figure 2. Conformational changes and nucleotidyl transfer
catalysis. (a) Stereo representation of an overlay of the Pol
active
site in the binary (gray) and precatalytic ternary (brown)
complex structures, focusing on the side chain movements
observed upon dNTP binding. Hydrogen bonds, dashed lines. (b)
Stereo view of the postcatalytic ternary complex. The two last
bases of the primer strand and the catalytic carboxylates are
shown, together with the pyrophosphate molecule. An overlay of
the equivalent atoms in the structure of the precatalytic
ternary complex is transparent. The line of transfer, dashed
line. The 3' O that was the acceptor in the reaction (3'O[N]),
the bridging oxygen of the leaving group (O[L]) and the phosphate
(P )
are labeled.
The above figure is reprinted
by permission from Macmillan Publishers Ltd:
Nat Struct Mol Biol
(2005,
12,
97-98)
copyright 2005.
active
site in the binary (gray) and precatalytic ternary (brown)
complex structures, focusing on the side chain movements
observed upon dNTP binding. Hydrogen bonds, dashed lines. (b)
Stereo view of the postcatalytic ternary complex. The two last
bases of the primer strand and the catalytic carboxylates are
shown, together with the pyrophosphate molecule. An overlay of
the equivalent atoms in the structure of the precatalytic
ternary complex is transparent. The line of transfer, dashed
line. The 3' O that was the acceptor in the reaction (3'O[N]),
the bridging oxygen of the leaving group (O[L]) and the 
phosphate
(P