Hitomi Hokonohara

DNA observation with scanning tunneling microscope using a solution

This paper investigates the roles of a solution (decane) in deoxyribonucleic acid (DNA) observation with a scanning tunneling microscope. Our study indicates that decane prevents continuous water adsorption from air and subsequent ionization of the water to create specific conditions for DNA observation. Analysis of the tunneling current reveals that the current with decane became twice as stable in deviation and the current is sustained 1 nm further in the z-direction than without decane. The apparent barrier height with decane is also decreased by a factor of 0.18. These properties enable us to measure bulky DNA (4 nm) at the highest success ratio ever attained.

Atomic Force Microscopy Imaging of Supramolecular Organization of Hyaluronan and Its Receptor CD44

Hyaluronan is a major component of extracellular matrix and involved in a variety of important biological processes such as cell motility, proliferation, differentiation, and survival. However, the structure of hyaluronan and the mode of interaction between hyaluronan and its receptor remain to be fully elucidated. Here, we visualized directly the structure of hyaluronan by nanoscale imaging using atomic force microscopy (AFM), and analyzed the pattern of interaction with its cell surface receptor CD44. We observed by AFM that hyaluronan formed honeycomb-like network structures, to which the recombinant protein of CD44 extracellular domain intensively adhered. The pattern of the meshwork varied with the concentration of hyaluronan and also with its molecular weight. These observations suggest that the network structure might account for the properties of hyaluronan of being like an elastic gel at high concentration, and that the structure varying in relation to the molecular weight may cause the difference in the biological activities of the hyaluronan.

Atomic force microscopy analysis of SasA‐KaiC complex formation involved in information transfer from the KaiABC clock machinery to the output pathway in cyanobacteria

The cyanobacterial clock oscillator is composed of three clock proteins: KaiA, KaiB and KaiC. SasA, a KaiC‐binding EnvZ‐like orthodox histidine kinase involved in the main clock output pathway, exists mainly as a trimer (SasA3mer) and occasionally as a hexamer (SasA6mer) in vitro. Previously, the molecular mass of the SasA‐KaiCDD complex, where KaiCDD is a mutant KaiC with two Asp substitutions at the two phosphorylation sites, has been estimated by gel‐filtration chromatography to be larger than 670 kDa. This value disagrees with the theoretical estimation of 480 kDa for a SasA3mer‐KaiC hexamer (KaiC6mer) complex with a 1:1 molecular ratio. To clarify the structure of the SasA‐KaiC complex, we analyzed KaiCDD with 0.1 mmol/L ATP and 5 mmol/L MgCl2 (Mg‐ATP), SasA and a mixture containing SasA and KaiCDD6mer with Mg‐ATP by atomic force microscopy (AFM). KaiCDD images were classified into two types with height distribution corresponding to KaiCDD monomer (KaiCDD1mer) and KaiCDD6mer, respectively. SasA images were classified into two types with height corresponding to SasA3mer and SasA6mer, respectively. The AFM images of the SasA‐KaiCDD mixture indicated not only KaiCDD1mer, KaiCDD6mer, SasA3mer and SasA6mer, but also wider area “islands,” suggesting the presence of a polymerized form of the SasA‐KaiCDD complex.