Hendry et al. Figure 4
Comparison of the fit into the apyrimidinic cavity
5' A_C 3', 3' TAG 5' using Connolly surfaces in stereo of
structural analogs of L- isoleucine which are not found translated into
protein. The cavity depicted in green mesh is the same as that in
except that it is rotated upward 90 degrees. This view is from above the 3rd
base C looking down the helix axis and shows the extent to which
a given amino acid side chain can be inserted within the cavity.
Click on the images below to view the molecules interactively. Choose the
Spacefill option from the RASMOL Display menu and Specular from
the Options menu for a rendered molecule. Select User from the Colors menu to
color code the interactive molecule as in this and previous figures.
A) Complementary stereochemical fit of L-isoleucine into the cavity.
B) Poor fit of the L-alloisoleucine diastereoisomer in the cavity.
C) Poor fit of the D-alloisoleucine diastereoisomer in the cavity.
D) Poor fit of the D-isoleucine enantiomer in the cavity.
E) Poor fit of the tertiary butyl structural isomer of L-isoleucine in the
F) Poor fit of the structural homolog, L-homoisoleucine in the cavity.