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Figure 5.
Fig. 5. Electrostatic surface of PDK2 compared with the
lipoyl domain. This figure shows a surface map of the PDK2
monomer and a modeled lipoyl domain. The colors are based on
charge density: red, negative charge; blue, positive charge;
white, neutral or hydrophobic. Both surface models were
generated in Swiss-PdbViewer (38) by mapping the
Poisson-Boltzmann electrostatic potential of the protein to
colors on the accessible molecular surface. Rendering was done
with POV-Ray for Windows (Cason, C., www.povray.org). A model of
a lipoyl domain was produced from the NMR structure of the L2
domain of human PDC (1FYC) with the rat L2 sequence (90%
identical to human) threaded on and energy minimized (38) The
colors are defined as for the PDK2 surface. The PDK2 monomer is
rotated away from the dimer interface to show the cleft between
the N- and C-terminal domains that is compatible in shape and
size to the lipoyl domain.
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