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Figure 1.
Figure 1. Structure of the NSF D2 Protomer(A) Topology of
D2. Helices are shown as cylinders; strands are shown as as
arrows. Residue numbers at the beginning and end of the
principal elements of secondary structure are indicated, as well
as the locations of the P loop and the DExx box (DDIE in D2).
Helices and strands are numbered consecutively in sequence.(B)
Stereo C[α] trace of D2. Every tenth C[α] is shown as a small
sphere and numbered. The bound AMPPNP is shown with thickened
black bonds.(C) Ribbon diagram of D2, with AMPPNP shown in a
ball-and-stick representation. To aid in following the path of
the backbone, the ribbon is white at the N terminus and becomes
progressively darker moving toward the C terminus. The P loop
and DExx box are green and red, respectively.(D) Ribbon diagram
of the first two domains of E. coli DNA polymerase III δ′
([22]), shown in the same orientation and color scheme as (C),
except for a zinc-binding insert unique to δ′ (α3), which is
shown in white. (B)–(D), as well as Figure 2B and Figure 3,
were prepared with MOLSCRIPT ( [28]).
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