WaaA of the Hyperthermophilic Bacterium Aquifex aeolicus Is a Monofunctional 3-Deoxy-d-manno-oct-2-ulosonic Acid Transferase Involved in Lipopolysaccharide Biosynthesis

The hyperthermophile Aquifex aeolicus belongs to the deepest branch in the bacterial genealogy. Although it has long been recognized that this unique Gram-negative bacterium carries genes for different steps of lipopolysaccharide (LPS) formation, data on the LPS itself or detailed knowledge of the LPS pathway beyond the first committed steps of lipid A and 3-deoxy-d-manno-oct-2-ulosonic acid (Kdo) synthesis are still lacking. We now report the functional characterization of the thermostable Kdo transferase WaaA from A. aeolicus and provide evidence that the enzyme is monofunctional. Compositional analysis and mass spectrometry of purified A. aeolicus LPS, showing the incorporation of a single Kdo residue as an integral component of the LPS, implicated a monofunctional Kdo transferase in LPS biosynthesis of A. aeolicus. Further, heterologous expression of the A. aeolicus waaA gene in a newly constructed Escherichia coli ΔwaaA suppressor strain resulted in synthesis of lipid IV_A precursors substituted with one Kdo sugar. When highly purified WaaA of A. aeolicus was subjected to in vitro assays using mass spectrometry for detection of the reaction products, the enzyme was found to catalyze the transfer of only a single Kdo residue from CMP-Kdo to differently modified lipid A acceptors. The Kdo transferase was capable of utilizing a broad spectrum of acceptor substrates, whereas surface plasmon resonance studies indicated a high selectivity for the donor substrate.Lipopolysaccharide (LPS)⁷ is the major constituent of the outer leaflet of the outer membrane (OM) of virtually all Gram-negative bacteria. LPS is a unique amphiphilic molecule composed of a hydrophilic heteropolysaccharide and a covalently bound lipid moiety, lipid A, which anchors the molecule in the OM. The polysaccharide component of many wild-type bacteria can be subdivided into a highly variable O-specific polysaccharide and a structurally less heterogeneous outer and inner core oligosaccharide (1). The 8-carbon sugar 3-deoxy-d-manno-oct-2-ulosonic acid (Kdo) links the lipid A to the carbohydrate domain of LPS and is the only conserved structural element found in all inner core regions investigated to date (2).The ubiquitous nature of Kdo within LPS structures and its essential role in maintaining OM integrity and viability of the majority of Gram-negative bacteria has prompted detailed studies into its biosynthesis. The Kdo pathway is initiated by the enzyme d-arabinose-5-phosphate isomerase, which catalyzes the interconversion of d-ribulose 5-phosphate and d-arabinose 5-phosphate (3). The Kdo-8-phosphate synthase KdsA subsequently condenses d-arabinose 5-phosphate with phosphoenolpyruvate to form Kdo 8-phosphate (4), followed by hydrolysis of Kdo 8-phosphate to Kdo and inorganic phosphate by the Kdo-8-phosphate phosphatase KdsC (5) and activation of Kdo to CMP-Kdo by the CMP-Kdo synthetase KdsB, before finally Kdo is transferred from CMP-Kdo to the lipid A moiety by the glycosyltransferase WaaA (6). In Escherichia coli, the Kdo-dependent late acyltransferases LpxL and LpxM subsequently transfer the fatty acids laurate and myristate, respectively, to Kdo₂-lipid IV_A to generate the characteristic acyloxyacyl units of hexaacylated Kdo₂-lipid A (7).It has long been recognized that Kdo transferases are unusual glycosyltransferases. WaaA is bifunctional in bacteria with LPS that contains an α-(2→4)-linked Kdo disaccharide in the inner core region, such as E. coli (6), Klebsiella pneumoniae (8), Legionella pneumophila (9), Acinetobacter baumannii, and Acinetobacter haemolyticus (10). In E. coli, CMP-Kdo is utilized for the transfer of Kdo to the tetraacylated lipid A precursor lipid IV_A, resulting in an α-(2→6)-linkage between the distal glucosamine (GlcN) of the lipid A backbone and the first Kdo residue and an α-(2→4)-linkage between a second Kdo residue and the first one. Thus, WaaA is capable of catalyzing the formation of two different glycosidic bonds, tolerating acceptor molecules with varying extents of acylation but strictly depending on the 4′-phosphate group of the tetraacyldisaccharide 1,4′-bisphosphate intermediate (6). In chlamydiae, however, which express an LPS composed of a Kdo trisaccharide with an unusual α-(2→8)-linkage between the second and a third Kdo residue (11), the Kdo transferases were shown to display at least trifunctional activity (12). The LPS of Chlamydophila psittaci consists of up to four Kdo residues of the structure α-Kdo-(2→4)-α-Kdo-(2→8)]-α-Kdo-(2→4)-α-Kdo (13), and heterologous expression of the waaA gene in E. coli was found to be sufficient for synthesis of the complete chlamydial Kdo structure (12). Finally, the Kdo transferases of Haemophilus influenzae and Bordetella pertussis were shown to be monofunctional (14, 15), consistent with the presence of a single phosphorylated Kdo residue in their respective LPS (16, 17).On the basis of phylogenetic analyses of 16 S ribosomal RNA sequences, members of the family Aquificaceae with growth-temperature maxima near 95 °C are thought to represent the deepest branching species of the kingdom Bacteria (18). The cells are Gram-negative with a rather complex cell envelope of a surface protein layer, murein, and an OM (19). Previous studies provided the first direct evidence for the presence of smooth form LPS in Aquifex pyrophilus (20). Furthermore, KdsA and the UDP-(3-O-(R-3-hydroxymyristoyl))-N-acetylglucosamine deacetylase (LpxC) of A. aeolicus, a close relative of A. pyrophilus, have been characterized in detail, and it was demonstrated that these enzymes catalyze the first committed steps in Kdo and lipid A formation, respectively (21–23). Moreover, a number of genes presumably encoding different steps of LPS biosynthesis have been identified on the A. aeolicus genome, including putative kdsB and waaA orthologues for Kdo activation and subsequent incorporation of the sugar into LPS (24). However, the number of Kdo residues transferred by WaaA of A. aeolicus remains unknown. We herein provide evidence that the A. aeolicus enzyme is a strictly monofunctional Kdo transferase through the characterization of its enzymatic activity and the chemical analysis of the native A. aeolicus LPS.