W0160
Crystal Structure of a Tetrameric GDP-D-mannose
4,6-dehydratase from a Bacterial GDP-D-rhamnose Biosynthetic Pathway. Nicole
A. Webb, Anne M. Mulichak, R. Michael Garavito, Dept. of Biochemistry and
Molecular Biology, Michigan State Univ., East Lansing, MI 48824.
D-rhamnose is a rare 6-deoxy monosaccharide primarily found in
the lipopolysaccharide of pathogenic bacteria, where it is involved in
host-bacterium interactions and the establishment of infection. The biosynthetic
pathway of D-rhamnose proceeds through two steps. GDP-D-mannose 4,6-dehydratase
(GMD) first converts GDP-D-mannose to the 4-keto-6-deoxy intermediate, which is
subsequently reduced to the nucleotide-activated D-rhamnose by a reductase. We
have determined the crystal structure of a bacterial GMD in complex with NADPH
and GDP. GMD belongs to the nucleotide-sugar modifying subfamily of the
short-chain dehydrogenase/reductase (SDR) enzymes. SDRs are known to have
homologous tertiary structures and share a conserved catalytic triad of
Tyr-xxx-Lys and Ser/Thr. GMD has a bi-domain structure consistent with other
related members of this subfamily. The larger N-terminal domain, the site of
NADPH cofactor binding, consists of a Rossmann fold, a motif commonly associated
with dinucleotide binding. The smaller C-terminal domain is responsible for
substrate binding. GMD deviates from the typical homodimeric structures seen in
most other related enzymes of this subfamily, as it is a tetramer like its plant
homolog MUR1, a GDP-D-mannose 4,6-dehydratase isoform from Arabidopsis
thaliana1. At the tetramer interface, the cofactor binding sites
are adjoined such that the adenosyl phosphate moieties of the bound NADPH
molecules are within 8 Å. A short peptide segment forms a loop in this
region that stretches into the neighboring monomer making not only
protein-protein interactions, but also hydrogen bonding interactions with the
neighboring cofactor. In addition, tetrameric contacts outside of this region
are conserved across both the prokaryotic and eukaryotic GMDs. When the residues
involved are not conserved, substitutions are conservative and expected to be
compatible with tetramer formation. These observations suggest that the tetramer
may be a more common oligomeric state for GMDs than previously
thought.
1Mulichak, A.M. et al. (2002) Biochemistry
41, 15578-15589.