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Figure 4.
FIGURE 4. A, plot of the difference in distance between
 -subunit atoms in the
ADP·V[i]·Mg·F[1] transition state-like
structure reported here aligned with the corresponding -subunit
atoms of the ADP·P[i]·F[1] structure (10). The two
-subunit structures were
aligned and the average distance between corresponding amino
acid atoms at each position throughout the sequences (residues
1-399 and 406-477) were calculated and plotted against residue
number. The average distance that includes all difference
calculations between all corresponding atoms in the two
structures is only 0.36 Å. In contrast, difference
calculations between corresponding atoms in the two structures
that include the P-loop (^156GGAGVGKT^163) gave an average value
of 1.0 Å (red line). B, overlay of a stick representation
of the P-loop region of the subunit of the
ADP·V[i]·Mg·F[1] transition state-like
structure reported here with that of the subunit of the
ADP·P[i]·F[1] structure (10). The conformational
differences in the P-loops of the two structures are clearly
delineated as are the relative positions of the -carbon
atom of Ala^158. In addition, the overlay shows that V[i] (red)
is much nearer the P-loop in the
ADP·V[i]·Mg·F[1] structure than is P[i]
(green)in the ADP·P[i]·F[1] structure.
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