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Shikimate dehydrogenase catalyzes the NADPH-dependent reversible reduction of 3-dehydroshikimate to shikimate. We report the first X-ray structure of shikimate dehydrogenase from Haemophilus influenzae to 2.4-A resolution and its complex with NADPH to 1.95-A resolution. The molecule contains two domains, a catalytic domain with a novel open twisted alpha/beta motif and an NADPH binding domain with a typical Rossmann fold. The enzyme contains a unique glycine-rich P-loop with a conserved sequence motif, GAGGXX, that results in NADPH adopting a nonstandard binding mode with the nicotinamide and ribose moieties disordered in the binary complex. A deep pocket with a narrow entrance between the two domains, containing strictly conserved residues primarily contributed by the catalytic domain, is identified as a potential 3-dehydroshikimate binding pocket. The flexibility of the nicotinamide mononucleotide portion of NADPH may be necessary for the substrate 3-dehydroshikimate to enter the pocket and for the release of the product shikimate.

Original publication

DOI

10.1128/jb.185.14.4144-4151.2003

Type

Journal article

Journal

J Bacteriol

Publication Date

07/2003

Volume

185

Pages

4144 - 4151

Keywords

Alcohol Oxidoreductases, Amino Acid Sequence, Binding Sites, Catalytic Domain, Crystallography, X-Ray, Haemophilus influenzae, Humans, Models, Molecular, Molecular Sequence Data, NADP, Protein Conformation, Protein Structure, Tertiary, Sequence Alignment, Shikimic Acid