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Biology subjects

Kawamoto, A.

Publications and source records attributed to Kawamoto, A..

2 recordsLinked to original sources

Translocational unfolding in clostridial binary iota toxin complex

Protein translocation across the membrane is critical for microbial pathogenesis and various cellular functions. Bacterial binary toxins such as anthrax toxin are composed of enzyme components and a translocation channel, which catalyses substrate unfolding and translocation. Here we report the structures of the clostridial binary toxin (iota toxin) translocation channel Ib-pore and its complex with ADP-ribosyltransferase Ia. The Ib-pore structure at atomic resolution provides a similar structural framework as observed for the catalytic {phi}-clamp of the anthrax protective antigen pore. However, the Ia-bound Ib-pore structure showed a unique binding mode of Ia: one Ia binds to the Ib-pore, and the Ia N-terminal domain interacts with Ib via two other Ib-pore bottlenecks with multiple weak interactions. Furthermore, Ib-binding induces Ia N-terminal -helix tilting and partial unfolding, whereupon the unfolded N-terminus continues to the {phi}-clamp gate. This study reveals the novel mechanism of N-terminal unfolding, which is crucial for protein translocation.

biophysics

Design and Synthesis of Pleated DNA Origami Nanotubes with Adjustable Diameters

DNA origami allows for the synthesis of nanoscale structures and machines with nanometre precision and high yields. Tubular DNA origami nanostructures are particularly useful because their geometry facilitates a variety of applications including nanoparticle encapsulation, the construction of artificial membrane pores and as structural scaffolds that can spatially arrange nanoparticles in circular, linear and helical arrays. Here we report a simple computational approach that determines minimally-strained DNA staple crossover locations for arbitrary nanotube internal angles. We apply the method in the design and synthesis of radially symmetric DNA origami nanotubes with arbitrary diameters and DNA helix stoichiometries. These include regular nanotubes where the wall of the structure is composed of a single layer of DNA helices, as well as those with a thicker pleated wall structure that have a greater rigidity and allow for continuously adjustable diameters and distances between parallel helices. We also introduce a DNA origami staple strand routing that incorporates both antiparallel and parallel crossovers and demonstrate its application to further rigidify pleated DNA nanotubes.

synthetic biology