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Midori Murakami
Nagoya University
83Publications
13H-index
982Citations
Publications 83
Newest
#1Hisanori Kondo (Nagoya University)
#2Midori Murakami (Nagoya University)H-Index: 13
Isocitrate dehydrogenase is a catabolic enzyme that acts during the third step of the tricarboxylic acid cycle. The hypothetical protein ST2166 from the archaeon Sulfolobus tokodaii was isolated and crystallized. It shares high primary structure homology with prokaryotic NADP
#1Siu Kit Chan (Nagoya University)H-Index: 2
#2Haruki Kawaguchi (Nagoya University)H-Index: 2
Last.Tsutomu Kouyama (Nagoya University)H-Index: 25
view all 7 authors...
Like other microbial rhodopsins, the light driven chloride pump halorhodopsin from Natronomonas pharaonis (pHR) contains a mixture of all-trans/15-anti and 13-cis/15-syn isomers in the dark adapted state. A recent crystallographic study of the reaction states of pHR has shown that reaction states with 13-cis/15-syn retinal occur in the anion pumping cycle that is initiated by excitation of the all-trans isomer. In this study, we investigated interconversions among different isomeric states of pH...
Thermoacidophilic archaeon Sulfolobus tokodaii strain 7 has two citrate synthase genes (ST1805-CS and ST0587-CS) in the genome with 45% sequence identity. Because they exhibit similar optimal temperatures of catalytic activity and thermal inactivation profiles, we performed structural comparisons between these isozymes to elucidate adaptation mechanisms to high temperatures in thermophilic CSs. The crystal structures of ST1805-CS and ST0587-CS were determined at 2.0 A and 2.7 A resolutions, resp...
#1Tsutomu Kouyama (Nagoya University)H-Index: 25
#2Haruki Kawaguchi (Nagoya University)H-Index: 2
Last.Midori Murakami (Nagoya University)H-Index: 13
view all 5 authors...
Halorhodopsin from Natronomonas pharaonis (pHR) functions as a light-driven halide ion pump. In the presence of halide ions, the photochemical reaction of pHR is described by the scheme: K→ L1 → L2 → N → O → pHR′ → pHR. Here, we report light-induced structural changes of the pHR-bromide complex observed in the C2 crystal. In the L1-to-L2 transition, the bromide ion that initially exists in the extracellular vicinity of retinal moves across the retinal Schiff base. Upon the formation of the N sta...
#1Midori Murakami (Nagoya University)H-Index: 13
#2Tsutomu Kouyama (Nagoya University)H-Index: 25
Upon absorption of light, the retinal chromophore in rhodopsin isomerizes from the 11-cis to the trans configuration, initiating a photoreaction cycle. The primary photoreaction state, bathorhodopsin (BATHO), relaxes thermally through lumirhodopsin (LUMI) into a photoactive state, metarhodopsin (META), which stimulates the conjugated G-protein. Previous crystallographic studies of squid and bovine rhodopsins have shown that the structural change in the primary photoreaction of squid rhodopsin is...
#1Eiji Kanamori (Nagoya University)H-Index: 6
#2Shinichi Kawaguchi (Osaka University)H-Index: 24
Last.Midori Murakami (Nagoya University)H-Index: 13
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The crystal structures of citrate synthase from the thermophilic eubacteria Thermus thermophilus HB8 (TtCS) were determined for an open form at 1.5 A resolution and for closed form at 2.3 A resolution, respectively. In the absence of ligands TtCS in the open form was crystalized into a tetragonal form with a single subunit in the asymmetric unit. TtCS was also co-crystallized with citrate and coenzyme-A to form an orthorhombic crystal with two homodimers in the asymmetric unit. Citrate and CoA a...
#1Tsutomu Kouyama (Nagoya University)H-Index: 25
#2Ryudo Fujii (Nagoya University)H-Index: 1
Last.Midori Murakami (Nagoya University)H-Index: 13
view all 6 authors...
Archaerhodopsin-2 (aR2), the sole protein found in the claret membrane of Halorubrum sp. Aus-2, functions as a light-driven proton pump. In this study, structural analysis of aR2 was performed using a novel three-dimensional crystal prepared by the successive fusion of claret membranes. The crystal is made up of stacked membranes, in each of which aR2 trimers are arranged on a hexagonal lattice. This lattice structure resembles that found in the purple membrane of H. salinarum, except that lipid...
#1Siu Kit Chan (Nagoya University)H-Index: 2
#2Tomomi Kitajima-Ihara (Nagoya University)H-Index: 4
Last.Tsutomu Kouyama (Nagoya University)H-Index: 25
view all 7 authors...
Cruxrhodopsin-3 (cR3), a retinylidene protein found in the claret membrane of Haloarcula vallismortis, functions as a light-driven proton pump. In this study, the membrane fusion method was applied to crystallize cR3 into a crystal belonging to space group P321. Diffraction data at 2.1 A resolution show that cR3 forms a trimeric assembly with bacterioruberin bound to the crevice between neighboring subunits. Although the structure of the proton-release pathway is conserved among proton-pumping a...
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