VlsE is an outer surface lipoprotein of Borrelia burgdorferi that undergoes antigenic variation through an elaborate gene conversion mechanism and is thought to play a major role in the immune response to the Lyme disease borellia. The crystal structure of recombinant variant protein VlsE1 at 2.3-Å resolution reveals that the six variable regions form loop structures that constitute most of the membrane distal surface of VlsE, covering the predominantly ␣-helical, invariant regions of the protein. The surface localization of the variable amino acid segments appears to protect the conserved regions from interaction with antibodies and hence may contribute to immune evasion.Lyme disease is a multistage, tick-borne infection that is endemic to regions of the United States, Europe, and Asia (1). The causative bacteria are a family of closely related spirochetes, including Borrelia burgdorferi, Borrelia garinii, and Borrelia afzelii, and are transmitted from one mammal to another by Ixodes ticks. Lyme disease borrelia cause persistent infections and chronic neurologic, cardiovascular, and arthralgic manifestations that can last for months to years in humans and other mammals if not treated successfully, indicating that the spirochetes can effectively evade the host's immune defenses.The mechanisms of immune evasion are not well understood at this time but are thought to include at least one form of antigenic variation. The variable major protein (VMP)-like sequence (vls) 1 locus of B. burgdorferi (2) is a complex antigenic variation system that in many ways resembles the more thoroughly characterized variable major protein system of relapsing fever borrelia (3). The vls locus of B. burgdorferi B31 consists of the expression site vlsE and a contiguous set of 15 vls silent cassettes. The exact function of the 35-kDa surfaceexposed lipoprotein VlsE is unknown; however, it is thought that the vls system may play an important role in mammalian infection because loss of the encoding linear plasmid lp28-1 results in reduced infectivity (4, 5).