Figure 3
Crystal structure of LepB313-618 and comparison with the VirA/EspG-family bacterial RabGAP and the TBC domain of Gyp1p. (A) Overall structure of LepB313-618 in comparison with those of VirA (PDB ID: 4FMB) and Gyp1p (PDB ID: 2G77). Secondary structure elements are drawn with α-helices as coils, β-strands as flat arrows and loops as lines. LepB313-618, VirA and Gyp1p are colored blue, orange and green, respectively. (B) Superimposition of LepB313-618 structure onto those of VirA and Gyp1p using Arg444/Glu449 in LepB313-618, Arg188/Gln280 in VirA and Arg343/Gln378 in Gyp1p as the references. Shown on the right is a close-up view with marked reference residues in stick models. α-helices are shown as cylinders colored as that in A. (C) Structural comparison of Arg444/Glu449 in LepB313-618 with Arg343/Gln378 in Gyp1p. GDP and AlF3 in the Gyp1p-Rab1 complex structure are shown as yellow sticks. Mg2+ and the nucleophilic water are depicted as magenta and red sphere, respectively. Polar interactions between GDP-AlF3 and Arg343/Gln378 in Gyp1p are denoted by black dashed lines.
