1DUD: Deoxyuridine-5'-Nucleotide Hydrolase
The structure to the right is dUTPase in a complex with a bound substrate analog, Deoxyuridine-5'-Diphosphate (dUDP).
(1) Find the substrate in its binding site
(2) Find C5 on the Uracil group. Is there enough room to attach a methyl group to C5?
(3) Locate the ribose 2 C. What protein group sterically prevents an OH group from being attached to the 2 C atom?
(4) Find the H-bond donors and acceptors (to the uracil base) from the protein. What would be the effect on the H-bonding if the base was changed to cytosine?