Cm. Bruns et Pa. Karplus, REFINED CRYSTAL-STRUCTURE OF SPINACH FERREDOXIN REDUCTASE AT 1.7 ANGSTROM RESOLUTION - OXIDIZED, REDUCED AND 2'-PHOSPHO-5'-AMP BOUND-STATES, Journal of Molecular Biology, 247(1), 1995, pp. 125-145
The crystal structure of spinach ferredoxin-NADP(+)-oxidoreductase (FN
R), determined by multiple isomorphous replacement at 2.6 Angstrom res
olution, has been refined at 1.7 Angstrom resolution to an R-factor of
17.9%. The structure of FNR bound to the competitive inhibitor 2'-pho
spho-5'-AMP (P-AMP) has also been refined at 1.7 Angstrom to an R-fact
or of 17.4% and dithionite-reduced/P-AMP-bound FNR has been refined at
2.0 Angstrom to an R-factor of 14.9%. The P-AMP-bound structure Mras
used to construct a model for the binding of NADP(+). Over 200 solvati
on sites were included in each structure, and many of the best defined
solvation sites stabilize buried turns. A bulk solvent correction obv
iated the need for a low-resolution data cutoff. An acidic side-chain
likely to be responsible for the low pH requirement for crystallizatio
n has been identified. Three large networks of the hydrophobic side-ch
ains help define the FNR structure. One of these contains a large cavi
ty far from the active site, which coincides with the lone site of seq
uence heterogeneity in FNR, and may provide a site for membrane attach
ment. The reduced structure shows that Ser96 moves toward atom N-5 of
FAD and a water molecule moves toward atom N-1 of FAD, while the flavi
n moiety remains planar. Possible sources of a proton that must be pic
ked up upon reduction are discussed.