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Research Alliance Laboratories

JEOL YOKOGUSHI Research Alliance Laboratories

SA Prof. NAMBA Keiichi SA Prof. NAMBA Keiichi

Keywords:

Cryo-electron microscopy, Supramolecular three-dimensional structure, Flagellar motor, Protein transport, Muscle contraction, Nano-machine

Development of structural biosciences by electron cryomicroscopy

Cell motility and protein export are basic cellular activities driven by intricate mechanisms of self-assembling macromolecular nanomachines by their conformational switching, force generation and energy transduction. These dynamic nanomachines are built up with individual atoms as functional parts and therefore work at very high precision and even at an energy level of thermal noise. We develop techniques of electron cryomicroscopy to analyze the structures and dynamics of these nanomachines to unravel their basic mechanisms, which will hopefully lead to bionanotechnology applications, such as design of new drugs and useful nanodevices.

(Left) Many bacteria move by rotating flagella as helical propellers with rotary motors at their base at around 20,000 rpm. The flagella grow at the distal tip by self-assembly of proteins translocated there by the flagellar protein export apparatus. (Right) Electron cryomicroscopy is becoming a powerful tool for biological sciences as it can visualize the 3D structures and conformational changes of macromolecular nanomachines, such as flagella and actin filaments, in their functional forms without crystallization.

Members

Keiichi Namba (Specially Appointed Professor) keiichi[at]fbs.osaka-u.ac.jp
Tomoko Miyata (Specially Appointed Associate Professor) miya[at]fbs.osaka-u.ac.jp
Miki Kinoshita (Specially Appointed Assistant Professor) miki[at]fbs.osaka-u.ac.jp
Fumiaki Makino (Guest Associate Professor)  
Kana Moriya (Specially Appointed Researcher)  
Yasuyo Abe (Technical Staff)  
Chie Yamada (Technical Staff)  
Yoshie Kushima (Technical Staff)  
Reiko Yamauchi (Temporary Technical Staff)  

You could probably reach more information of individual researchers by Research Map and researcher's search of Osaka-U.

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Research Highlights

論文、総説、著書

2023

Aizawa, S.-I. & Minamino, T.

Flagella.

Molecular Medical Biology, Third Edition 97-126  2023

Kinoshita, M., Minamino, T., Uchihashi, T. & Namba, K.

FliH and FliI help FlhA bring strict order to flagellar protein export in Salmonella.

bioRxiv   2023 DOI:10.1101/2023.11.25.568686

Suzuki, Y., Makino, F., Miyata, T., Tanaka, H., Namba, K., Kano, K., Sowa, K., Kitazumi, Y. & Shirai, O.

Essential insight of direct electron transfer-type Bioelectrocataly-sis by Membrane-bound D-fructose dehydrogenase with structural bioelectrochemistry.

ACS Catalysis 13, 13828-13837  2023 DOI:10.1021/acscatal.3c03769

Akiba, H., Fujita, J., Ise, T., Nishiyama, K., Miyata, T., Kato, T., Namba, K., Ohno, H., Kamada, H., Nagata, S. & Tsumoto, K.

Development of a 1:1-binding biparatopic anti-TNFR2 antagonist by reducing signaling activity through epitope selection.

Commun. Biol. 6, 987  2023 PMID:37758868 DOI:10.1038/s42003-023-05326-8

Minamino, T., Nakane, D., Nakamura, S., Kiyama, H., Morimoto, V.Y., Miyata, M.

Frontiers of microbial movement research.

Biophys. Physicobiol. 20, e200033  2023 DOI:10.2142/biophysico.bppb-v20.0033

Minamino, T. & Kinoshita, M.

Structure, assembly, and function of flagella responsible for bacterial locomotion.

Eco. Sal. Plus in press  2023 PMID:37260402 DOI:10.1128/ecosalplus.esp-0011-2023

Fujita, J., Amesaka, H., Yoshizawa, T., Hibino, K., Kamimura, N., Kuroda, N., Konishi, T., Kato, Y., Hara, M., Inoue, T., Namba, K., Tanaka, S. & Matsumura, H.

Structures of a FtsZ single protofilament and a double-helical tube in complex with a monobody.

Nat. Commun. 14, 4073  2023 PMID:37429870 DOI:10.1038/s41467-023-39807-5

Adachi, T., Miyata, T., Makino, F., Tanaka, H., Namba, K., Kano, K., Sowa, K., Kitazumi, Y. & Shirai, O.

Experimental and Theoretical Insights into Bienzymatic Cascade for Mediatorless Bioelectrochemical Ethanol Oxidation with Alcohol and Aldehyde Dehydrogenases.

ACS Catalysis 13, 7955-7965  2023 DOI:10.1021/acscatal.3c01962

Bryan, E., Ferrer-Gonzlaez, E., Sagong, H.Y., Fujita, J., Mark, L., Kaul, M., LaVoie, E.J., Matsumura, H. & Pilch, D.S.

Structural and antibacterial characterization of a new benzamide FtsZ inhibitor with superior bactericidal activity and in vivo efficacy against multidrug-resistant Staphylococcus aureus.

ACS Chem. Biol. 18, 629-642  2023 PMID:36854145 DOI:10.1021/acschembio.2c0093

Nakamura, S. & Minamino, T.

High-Resolution Rotation Assay of the Bacterial Flagellar Motor Near Zero Loads Using a Mutant Having a Rod-Like Straight Hook.

Methods in Molecular Biology 2646:125-131  2023 PMID:36842111 DOI:10.1007/978-1-0716-3060-0_11

Morimoto, Y.V. & Minamino, T.

Measurements of the Ion Channel Activity of the Transmembrane Stator Complex in the Bacterial Flagellar Motor

Methods in Molecular Biology 2646:83-94  2023 PMID:36842108 DOI:10.1007/978-1-0716-3060-0_8

Yamaguchi, T., Miyata, T., Makino, F. & Namba, K.

Purification and CryoEM Image Analysis of the Bacterial Flagellar Filament.

Methods in Molecular Biology 2646:43-53  2023 PMID:36842105 DOI:10.1007/978-1-0716-3060-0_5

Kinoshita, M., Namba, K. & Minamino, T.

Purification of the Transmembrane Polypeptide Channel Complex of the Salmonella Flagellar Type III Secretion System

Methods in Molecular Biology 2646:3-15  2023 PMID:36842101 DOI:10.1007/978-1-0716-3060-0_1

Minamino, T., Miyata, M. & Namba, K. (Editors)

Bacterial and Archaeal Motility - Methods and Protocols

Methods in Molecular Biology Springer Nature vol.2646  2023 DOI:10.1007/978-1-0716-3060-0

Xiong, D., Yang, Z., He, X., He, W., Shen, D., Wang, L., Lin, L., Murero, A., Minamino, T., Shao, X. & Qian, G.

Loss of flagella-related genes enables a nonflagellated, fungal-predating bacterium to strengthen the synthesis of an antifungal weapon.

Microbiol. Spectr. 14;11(1):e0414922  2023 PMID:36629418 DOI:10.1128/spectrum.04149-22

Fujita, J., Makino, F., Asahara, H., Moriguchi, M., Kumano, S., Anzai, I., Kishikawa, J., Matsuura, Y., Kato, T., Namba, K. & Inoue, T.

Epoxidized graphene grid for high-throughput high-resolution cryoEM structural analysis.

Scientific Reports 13, 2279  2023 PMID:36755111 DOI:10.1038/s41598-023-29396-0

Jiang, H., Ariyoshi, M., Hori, T., Watanabe, R., Makino, F., Namba, K. & Fukagawa, T.

The cryo-EM structure of the CENP-A nucleosome in complex with ggKNL2.

EMBO Journal 42, e111965  2023 PMID:36744604 DOI:10.15252/embj.2022111965

Shibata, S., Tahara, Y.O., Katayama, E., Kawamoto, A., Kato, T., Zhu, Y., Nakane, D., Namba, K., Miyata, M., McBride, M.J. & Nakayama, K.

Filamentous structures in the cell envelope are associated with bacteroidetes gliding machinery.

Commun. Biol. 6, 94  2023 PMID:36690840 DOI:10.1038/s42003-023-04472-3

2022

Sasajima, Y., Kato, T., Miyata, T., Kawamoto, A., Namba, K. & Miyata, M.

Isolation and structure of the fibril protein, a major component of the internal ribbon for Spiroplasma swimming.

Front. Microbiol. 13, 1004601  2022 PMID:36274716 DOI:10.3389/fmicb.2022.1004601

Otsubo, R., Minamitani, T., Kobiyama, K., Fujita, J., Ito, T., Ueno, S., Anzai, I., Tanino, H., Aoyama, H., Matsuura, Y., Namba, K., Imadome, K., Ishii, K.J., Tsumoto, K., Kamitani, W. & Yasui, T.

Human antibody recognition and neutralization mode on the NTD and RBD domains of SARS-CoV-2 spike protein.

Scientific Reports 12, 20120  2022 PMID:35436443 DOI:1038/s41598-022-24730-4

Minamino, T., Kinoshita, M., Morimoto, Y.V. & Namba, K.

Activation mechanism of the bacterial flagellar dual-fuel protein export engine.

Biophys. Physicobiol. 19, e190046  2022 PMID:36567733 DOI:10.2142/biophysico.bppb-v19.0046

Li, J., Hamaoka, N., Makino, F., Kawamoto, A., Lin, Y., R?gner, M., Nowaczyk, M.M., Lee, Y.-H., Namba, K., Gerle, C. & Kurisu, G.

Structure of cyanobacterial photosystem I complexed with ferredoxin at 1.97 A resolution.

Commun. Biol. 12;5(1)951  2022 PMID:36097054 DOI:10.1038/s42003-022-03926-4

Gerle, C., Kishikawa, J., Yamaguchi, T., Nakanishi, A., Coruh, O., Makino, F., Miyata, T., Kawamoto, A., Yokoyama, K., Namba, K., Kurisu, G. & Kato, T.

Structures of multisubunit membrane complexes with the CRYO ARM 200

Microscopy dfac037  2022 PMID:35861182 DOI:10.1093/jmicro/dfac037

Shibata, S., Tahara, Y.O., Katayama, E., Kawamoto, A., Zhu, Y., Nakane, D., Namba, K., Miyata, M., McBride, M.J. & Nakayama, K.

A multi-rail structure in the cell envelope for the Bacteroidetes gliding machinery.

Research Square   2022 DOI:10.21203/rs.3.rs-1802191/v1

Minamino, T., Kinoshita, M., Inoue, Y., Kitao, A. & Namba, K.

Conserved GYXLI motif of FlhA is involved in dynamic domain motions of FlhA required for flagellar protein export.

Microbiol. Spectr. 10(4), e0111022  2022 PMID:35876582 DOI:10.1128/spectrum.01110-22

Maeda R., Fujita J., Konishi Y., Kazuma Y., Yamazaki H., Anzai I., Watanabe, T., Yamaguchi K., Kasai K., Nagata K., Yamaoka Y., Miyakawa K., Ryo A., Shirakawa K., Sato, K., Makino F., Matsuura Y., Inoue T., Imura A., Namba K., & Takaori-Kondo A.

A panel of nanobodies recognizing conserved hidden clefts of all SARS-CoV-2 spike variants including Omicron.

Commun. Biol. 5, 669  2022 PMID:35794202 DOI:10.1038/s42003-022-03630-3

Yoshikawa, T., Makino, F., Miyata, T., ZSuzuki, Y., Tanaka, H., Namba, K., Kano, K., Sowa, K., Kitazumi, Y. & Shirai, O.

Multiple electron transfer pathways of tungsten-containing formate dehydrogenase in direct electron transfer-type bioelectrocatalysis.

Chem.Comm. 58, 6478-6481  2022 PMID:35535582 DOI:10.1039/D2CC01541B

Minamino, T., Kinoshita, M. & Namba, K.

Insight into distinct functional roles of the flagellar ATPase complex for flagellar assembly in Salmonella.

Front. Microbiol. 13, 864178  2022 PMID:35602071 DOI:10.3389/fmicb.2022.864178

Namba, K. & Makino, F.

Recent progress and future perspective of electron cryomicroscopy for structural life sciences.

Microscopy 71(S1), i3-i14  2022 PMID:35275178 DOI:10.1093/jmicro/dfab049

2021

Matsunami, H., Yoon, Y.-H., Imada, K., Namba, K. & Samatey, F.A.

Structure of the bacterial flagellar hook cap provides insights into a hook assembly mechanism.

Communications Biology 4; 1291  2021 PMID:34785766 DOI:10.1038/s42003-021-02796-6

Minamino, T., Morimoto, Y.V., Kinoshita, M. & Namba, K.

Multiple roles of flagellar export chaperones for efficient and robust flagellar filament formation in Salmonella.

Frontiers in Microbiology 12; 756044  2021 PMID:34691007 DOI:10.3389/fmicb.2021.756044

Hendriksen, J.J., Lee, H.J., Bradshaw, A.J., Namba, K., Chevance, F.F.V., Minamino, T., Hughes, K.T.

Genetic analysis of the Salmonella FliE protein that forms the base of the flagellar axial structure.

mBio 12(5): e02392-21  2021 PMID:34579566 DOI:10.1128/mBio.02392-21

Jin, F., Sun, M., Fujii, T., Yamada, Y., Wang, J., Maturana, A.D., Wada, M., Su, S., Ma, J., Takeda, H., Kusakizako, T., Tomita, A., Nakada-Nakura, Y., Liu, K., Uemura, T., Nomura, Y., Nomura, N., Ito, K., Nureki, O., Namba, K., Iwata, S., Yu, Y. & Hattori, M.

The structure of MgtE in the absence of magnesium provides new insights into channel gating.

PLoS Biol. 19(4): e3001231  2021 PMID:33905418 DOI:10.1371/journal.pbio.3001231

Toyonaga, T., Kato, T., Kawamoto, A., Kodera, N., Hamaguchi, T., Tahara, Y.O., Ando, T., Namba, K. & Miyata, M.

Chained structure of dimeric F1-like ATPase in Mycoplasma mobile gliding machinery.

mBio 12(4): e0141421  2021 PMID:34281395 DOI:10.1128/MBIO.01414-21

Yamaguchi, T., Makino, F., Miyata, T., Minamino, T., Kato, T. & Namba, K.

Structure of the molecular bushing of the bacterial flagellar motor.

Nat. Commun. 12, 4469  2021 PMID:34294704 DOI:10.1038/s41467-021-24715-3

Kawamoto, A., Miyata, T., Makino, F., Kinoshita, M., Minamino, T., Imada, K., Kato, T. & Namba, K.

Native flagellar MS ring is formed by 34 subunits with 23-fold and 11-fold subsymmetries.

Nat. Commun. 12, 4223  2021 PMID:34244518 DOI:10.1038/s41467-021-24507-9

Minamino, T., Morimoto, Y.V., Kinoshita, M. & Namba, K.

Membrane voltage-dependent activation mechanism of the bacterial flagellar protein export apparatus.

PNAS 118 (22) e2026587118  2021 PMID:34035173 DOI:10.1073/pnas.2026587118

Minamino, T. & Namba, K.

Recent advances in the bacterial flagellar motor study

Biomolecules 11, 741  2021 PMID:34067523 DOI:10.3390/biom11050741

Inoue, Y., Kinoshita, M., Kida, M., Takekawa, N., Namba, K., Imada, K. & Minamino, T.

The FlhA linker mediates flagellar protein export switching during flagellar assembly.

Communications Biology 4, 646  2021 PMID:34059784 DOI:10.1038/s42003-021-02177-z

Kinoshita, M., Namba, K. & Minamino, T.

A positive charge region of Salmonella FliI is required for ATPase formation and efficient flagellar protein export.

Communications Biology 4, 464  2021 PMID:33846530 DOI:10.1038/s42003-021-01980-y

Minamino, T., Kinoshita, M., Morimoto, Y.V. & Namba, K.

The FlgN chaperone activates the Na+-driven engine of the Salmonella flagellar protein export apparatus.

Communications Biology 4, 335  2021 PMID:33712678 DOI:10.1038/s42003-021-01865-0

Takekawa, N., Kawamoto, A., Sakuma, M., Kato, T., Kojima, S., Kinoshita, M., Minamino, T., Namba, K., Homma, M. & Imada, K.

Two distinct conformations in 34 FliF subunits generate three different symmetries within the flagellar MS-ring.

mBio 12:e03199-20  2021 PMID:33653894 DOI:10.1128/mBio.03199-20.

Coruh, O., Frank, A., Tanaka, H., Kawamoto, A., El-Mohsnawy, E., Kato, T., Namba, K., Gerle, C., Nowaczyk, M.M., Kurisu, G.

Cryo-EM structure of a functional monomeric Photosystem I from Thermosynechococcus elongates reveals ‘red’ chlorophyll cluster.

Commun. Biol. 4, 304  2021 PMID:33686186 DOI:10.1038/s42003-021-01808-9

Inoue, Y., Hanazono, Y., Noi, K., Kawamoto, A., Kimatsuka, M. Harada, R.,Takeda, K., Iwamasa, N., Shibata, K., Noguchi, K., Shigeta, Y., Namba, K., Ogura, T., Miki, K., Shinohara, K., Yohda, M.

Split conformation of Chaetomium thermophilum Hsp104 disaggregase.

Structure 29, 1-10  2021 PMID:33651974 DOI:10.1016/j.str.2021.02.002

Ariyoshi, M., Makino, F., Watanabe, R., Nakagawa, R., Kato, T., Namba, K., Arimura, Y., Fujita, R., Kurumizaka, H., Okumura, E., Hara, M. & Fukagawa, T.

Cryo-EM structure of the CENP-A nucleosome in complex with phosphorylated CENP-C.

EMBO Journal e105671  2021 PMID:33463726 DOI:10.15252/embj.2020105671

Morimoto, Y.V. & Minamino, T.

Architecture and assembly of the bacterial flagellar motor complex.

Macromolecular Protein Complexes III: Structure and Function, Subcellular Biochemistry 96: 297-321  2021 PMID:33252734 DOI:10.1007/978-3-030-58971-4_8.

2020

Fulano, A.M., Shen, D., Zhang, E.-H., Shen, X., Chou, S.-H., Minamino, T., Puopolo, G. & Qian, G.

Functional divergence of flagellar type III secretion system: A case study in a non-flagellated, predatory bacterium.

Comput. Struct. Biotechnol. 18, 3368-3376  2020 DOI:10.1016/j.csbj.2020.10.029

Terahara, N., Namba, K. & Minamino, T.

Dynamic exchange of two types of stator units in Bacillus subtilis flagellar motor in response to environmental changes.

Comput. Struct. Biotechnol. 18, 2897-2907  2020 PMID:33163150 DOI:10.1016/j.csbj.2020.10.009

Vizarraga, D., Kawamoto, A., Matsumoto, U., Illanes, R., Perez-Luque, R., Martin, J., Mazzolini, R., Bierge, P., Pich, O., Espasa, M., Sanfeliu, I., Esperalba, J., Fernandez-Huerta, M., Scheffer, M., Pinyol, J., Frangakis, A., Lluch-Senar, M., Mori, S., Shibayama, K., Kenri, T., Kato, T., Namba, K., Fita, I., Miyata, M. & Aparicio, D.

Immunodominant proteins P1 and P40/P90 from human pathogen Mycoplasma pneumoniae.

Nat. Commun. 11, 5188  2020 PMID:33057023 DOI:10.1038/s41467-020-18777-y

Morimoto, V.Y., Namba, K. & Minamino, T.

GFP fusion to the N-terminus of MotB affects the proton channel activity of the bacterial flagellar motor in Salmonella.

Biomolecules 10, 1255  2020 PMID:32872412 DOI:10.3390/biom10091255

Kishikawa, J., Nakanishi, A., Furuta, A., Kato, T., Namba, K., Tamakoshi, M., Mitsuoka, K. & Yokoyama, K.

Mechanical inhibition of isolated V0 from V/A-ATPase for proton conductance.

eLife 9:e56862  2020 PMID:32639230 DOI:10.7554/eLife.56862

Terashima, H., Hirano, K., Inoue, Y., Tokano, T., Kawamoto, A., Kato, T., Yamaguchi, E., Namba, K., Uchihashi, T., Kojima, S. & Homma, M.

Assembly mechanism of a supramolecular MS-ring complex to initiate bacterial flagellar biogenesis in Vibrio species.

J. Bacteriol. 202, e00236-20  2020 PMID:32482724 DOI:10.1128/JB.00236-20

Fulano, A.M., Shen, D., Kinoshita, M., Chou, S.-H., & Qian, G.

The homologous components of flagellar type III protein apparatus have acquired a novel function to control twitching motility in a non-flagellated biocontrol bacterium.

Biomolecules 10, 733  2020 PMID:32392834 DOI:10.3390/biom10050733

Miyata, M., Robinson, R.C., Uyeda, T.P.Q., Fukumori, Y., Fukushima, S., Haruta, S., Homma, M., Inaba, K., Ito, M., Kaito, C., Kato, K., Kenri, T., Kinoshita, Y., Kojima, S., Minamino, T., Mori, H., Nakamura, S., Nakane, D., Nakayama, K., Nishiyama, M., Shibata, S., Shimabukuro, K., Tamakoshi, M., Taoka, A., Tashiro, Y., Tulum, I., Wada, H. & Wakabayashi, K.

Tree of motility _ A proposed history of motility systems in the tree of life.

Genes Cells 25:6_21  2020 PMID:31957229 DOI:10.1111/gtc.12737

Oide, M., Kato, T., Oroguchi, T. & Nakasako, M.

Energy landscape of domain motion in glutamate dehydrogenase deduced from cryo-electron microscopy.

FEBS J. 287, 3472-3493  2020 PMID:31976609 DOI:10.1111/febs.15224

Nakamura, S., Hanaizumi, Y., Morimoto, Y.V., Inoue, Y., Erhardt, M., Minamino, T. & Namba, K.

Direct observation of speed fluctuations of flagellar motor rotation at extremely low load close to zero.

Mol. Microbiol. 113(4):755-765  2020 PMID:31828860 DOI:10.1111/mmi.14440

Yamaguchi, T., Toma, S., Terahara, N., Miyata, T., Ashihara, M., Minamino, T., Namba, K. & Kato, T.

Structural and functional comparison of Salmonella flagellar filaments composed of FljB and FliC.

Biomolecules 10, 246  2020 PMID:32041169 DOI:10.3390/bioml0020246

Minamino, T., Inoue, Y., Kinoshita, M. & Namba, K.

FliK-driven conformational rearrangements of FlhA and FlhB are required for export switching of the flagellar protein export apparatus.

J. Bacteriol. 202:e00637-19  2020 PMID:31712281 DOI:10.1128/JB.00637-19

Terashima, H., Tatsumi, C., Kawamoto, A., Namba, K., Minamino, T. & Imada, K.

In vitro autonomous construction of the flagellar axial structure in the inverted membrane vesicles.

Biomolecules 10, 126  2020 PMID:31940802 DOI:10.3390/biom10010126

Yamada, Y., Namba, K. & Fujii, T.

Cardiac muscle thin filament structures reveal calcium regulatory mechanism.

Nat. Commun. 11, 153  2020 PMID:31919429 DOI:10.1038/s41467-019-14008-1

2019

Nishikawa, M.S., Nakane, D., Toyonaga, T., Kawamoto, A., Kato, T., Namba, K. & Miyata, M.

Refined mechanism of Mycoplasma mobile gliding based on structure, ATPase activity, and sialic acid binding of machinery.

mBio 10:e02846-19  2019 PMID:31874918 DOI:10.1128/mBio.02846-19

Kato, T., Makino, F., Miyata, T., Horv_th, P. & Namba, K.

Structure of the native supercoiled flagellar hook as a universal joint.

Nat. Commun. 10, 5295  2019 PMID:31757961 DOI:10.1038/s41467-019-13252-9

Kato, T., Makino, F., Nakane, T., Terahara, N., Kaneko, T., Shimizu, Y., Motoki, S., Ishikawa, I., Yonekura, K. & Namba, K.

CryoTEM with a cold emission gun that moves structural biology into a new stage.

Microsc. microanal. 25(Suppl 2):998-999  2019 DOI:10.1017/S1431927619005725

Horvath, P., Kato, T., Miyata, T. & Namba, K.

Structure of Salmonella flagellar hook reveals intermolecular domain interactions for the universal joint function.

Biomolecules 9, 462  2019 PMID:31505847 DOI:10.3390/biom9090462

Minamino, T., Kinoshita, M. & Namba, K.

Directional switching mechanism of the bacterial flagellar motor.

Comp. Struct. Biotechnol. J. 17:1075-1081  2019 PMID:31452860 DOI:10.1016/j.csbj.2019.07.020

Nakamura, S. & Minamino, T.

Flagella-driven motility of bacteria.

Biomolecules 9, 279  2019 PMID:31337100 DOI:10.3390/biom9070279

Saijo-Hamano, Y., Matsunami, H., Namba, K. & Imada, K.

Architecture of the Bacterial Flagellar Distal Rod and Hook of Salmonella.

Biomolecules 9, 260  2019 PMID:31284631 DOI:10.3390/biom9070260

Inoue, Y., Kinoshita, M., Namba, K. & Minamino, T.

Mutational analysis of the C-terminal cytoplasmic domain of FlhB, a transmembrane component of the flagellar type III protein export apparatus in Salmonella.

Genes Cells 24(6):408-421  2019 PMID:30963674 DOI:10.1111/gtc.12684

Inoue, Y., Ogawa, Y., Kinoshita, M., Shimada, M., Kodera, N., Ando, T., Namba, K, Kitao, A., Imada, K. & Minamino, T.

Structural insights into the substrate specificity switching mechanism of the type III protein export apparatus.

Structure 27(6):965-976.e6  2019 PMID:31031200 DOI:10.1016/j.str.2019.03.017

Sakai, T., Miyata, T., Terahara, N., Mori, K., Inoue, Y., Morimoto, Y.V., Kato, T., Namba, K. & Minamino, T.

Novel insights into conformational rearrangements of the bacterial flagellar switch complex.

mBio 10:e00079-19  2019 PMID:30940700 DOI:10.1128/mBio.00079-19

2018

Fujii, T, Namba, K.

Complementary use of electron cryomicroscopy and X-ray crystallography: structural studies of actin and actomyosin filaments.

Integrative Structural Biology with Hybrid Methods, Advances in Experimental Medicine and Biology, Springer Nature Singapore Pte Ltd. 1105:25-42  2018 PMID:30617822 DOI:10.1007/978-981-13-2200-6_4

Minamino, T., Terahara, N., Kojima, S. & Namba, K.

Autonomous control mechanism of stator assembly in the bacterial flagellar motor in response to changes in the environment.

Mol. Microbiol. 10:723-734  2018 PMID:30069936 DOI:10.1111/mmi.14092

Terashima, H., Kawamoto, A., Tatsumi, C., Namba, K., Minamino, T. & Imada, K.

In vitro reconstitution of functional type III protein export and insights into flagellar assembly.

mBio 9(3):e00988-18  2018 PMID:29946050 DOI:10.1128/mBio.00988-18

Tahara, H., Takabe, K., Sasaki, Y., Kasuga, K., Kawamoto, A., Koizumi, N., Nakamura, S.

The mechanism of two-phase motility in the spirochete Leptospira: Swimming and crawling.

Sci. Adv. 4(5):eaar7975  2018 PMID:29854948 DOI:10.1126/sciadv.aar7975

Sasaki, Y., Kawamoto, A., Tahara, H., Kasuga, K., Sato, R., Ohnishi, M., Nakamura, S., Koizumi, N.

Leptospiral flagellar sheath protein FcpA interacts with FlaA2 and FlaB1 in Leptospira biflexa.

PLoS One 13(4):e0194923  2018 PMID:29634754 DOI:10.1371/journal.pone.0194923

Minamino, T.

Hierarchical protein export mechanism of the bacterial flagellar type III protein export apparatus.

FEMS Microbiol. Lett. 365:1-9  2018 PMID:29850796 DOI:10.1093/femsle/fny117

Namba, K., Kato, T.

Technical Development of Electron Cryomicroscopy and Contributions to Life Sciences.

JEOL NEWS 53:18-24  2018

Minamino, T., Kato, T., Makino, F., Horvath, P., Miyata, T. & Namba, K.

Electron Microscopy of Motor Structure and Possible Mechanisms.

Encyclopedia of Biophysics   2018 DOI:10.1007/978-3-642-16712-6_196

Minamino, T., Morimoto, Y.V., Kawamoto, A., Terashima, H. & Imada, K.

The bacterial flagellum.

InTechOpen 42811  2018 DOI:10.5772/intechopen.73277

Terahara, N., Inoue, Y., Kodera, N., Morimoto, Y.V., Uchihashi, T., Imada, K., Ando, T., Namba, K. & Minamino, T.

Insight into structural remodeling of the FlhA ring responsible for bacterial flagellar type III protein export.

Sci. Adv. 4(4):eaao7054  2018 PMID:29707633 DOI:10.1126/sciadv.aao7054

Kinoshita, M., Namba, K. & Minamino, T.

Effect of a clockwise-locked deletion in FliG on the FliG ring structure of the bacterial flagellar motor.

Genes Cells 23:241-247  2018 PMID:29405551 DOI:10.1111/gtc.12565

Fujii, T., Matsunami, H., Inoue, Y. & Namba, K.

Evidence for the hook supercoiling mechanism of the bacterial flagellum.

Biophysics and Physicobiology 15:28-32  2018 PMID:29607277 DOI:10.2142/biophysico.15.0_28

Inoue, Y., Morimoto, Y.V., Namba, K. & Minamino, T.

Novel insights into the mechanism of well-ordered assembly of bacterial flagellar proteins in Salmonella.

Sci Rep 8(1787)  2018 PMID:29379125 DOI:10.1038/s41598-018-20209-3

Kinoshita, M., Furukawa, Y., Uchiyama, S., Imada, K., Namba, K. & Minamino, T.

Insight into adaptive remodeling of the rotor ring complex of the bacterial flagellar motor.

BBRC 496:12-17  2018 PMID:29294326 DOI:10.1016/j.bbrc.2017.12.118

Sakai, T., Inoue, Y., Terahara, N., Namba, K. & Minamino, T.

A triangular loop of domain D1 of FlgE is essential for hook assembly but not for the mechanical function.

BBRC 495:1789-1794  2018 PMID:29229393 DOI:10.1016/j.bbrc.2017.12.037

2017

Terashima, N., Kawamoto, A., Morimoto, Y.V., Imada, K. & Minamino, T.

Structural differences in the bacterial flagellar motor among bacterial species.

Biophysics and Physicobiology 14:191-198  2017 PMID:29362704 DOI:10.2142/biophysico.14.0_191

Morimoto, Y.V., Kami-ike, N., Namba, K. & Minamino, T.

Determination of local pH differences within living Salmonella cells by high-resolution pH imaging based on pH-sensitive GFP derivative, pHluorin(M153R).

Bio-protocol 7(1):e2529  2017 DOI:10.21769/BioProtoc.2529

Terahara, N., Kodera, N., Uchihashi, T., Ando, T., Namba, K. & Minamino, T.

Na+-induced structural transition of MotPS for stator assembly of Bacillus flagellar motor.

Sci. Adv. 3(11):eaao4119  2017 PMID:29109979 DOI:10.1126/sciadv.aao4119

Pourjaberi, S.N.S., Terahara, N., Namba, K. & Minamino, T.

The role of a cytoplasmic loop of MotA in load-dependent assembly and disassembly dynamics of the MotA/B stator complex in the bacterial flagellar motor.

Mol. Microbiol. 106(4):646-658  2017 PMID:28925530 DOI:10.1111/mmi.13843.

Takabe, K., Kawamoto, A., Tahara, H., Kudo, S. & Nakamura, S.

Implications of coordinated cell-body rotations for Leptospira motility.

Blood 491:1040-1046  2017 PMID:28780349 DOI:10.1016/j.bbrc.2017.08.007

Fukumura T, Makino F, Dietsche T, Kinoshita M, Kato T, Wagner S, Namba K, Imada K, Minamino T

Assembly and stoichiometry of the core structure of the bacterial flagellar type III export gate complex

PLoS. Biol. 15(8):e2002281  2017 PMID:28771466 DOI:10.1371/journal.pbio.2002281

Morimoto, Y.V., Minamino, T.

Stoichiometry and turnover of the stator and rotor.

The Bacterial Flagellum _ Methods and Protocols- 1593:203-213  2017 PMID:28389956 DOI:10.1007/978-1-4939-6927-2_16

Kawamoto, A., Namba, K.

Structural study of the bacterial flagellar basal body by electron cryomicroscopy and image analysis.

The Bacterial Flagellum _ Methods and Protocols- 1593:119-131  2017 PMID:28389949 DOI:10.1007/978-1-4939-6927-2_9

Kawamoto, A., Namba, K.

Fuel of the bacterial flagellar type III protein export apparatus.

The Bacterial Flagellum _ Methods and Protocols- 1593:3-16  2017 PMID:28389941 DOI:10.1007/978-1-4939-6927-2_1

Hiraoka, K.D., Morimoto, Y.V., Inoue, Y., Fujii, T., Miyata, T., Makino, F., Minamino, T. & Namba, K.

Straight and rigid flagellar hook made by insertion of the FlgG specific sequence into FlgE.

Sci Rep 7:46723  2017 PMID:28429800 DOI:10.1038/srep46723.

Terahara, N., Noguchi, Y., Nakamura, S., Kamiike, N., Ito, M., Namba, K., Minamino, T.

Load- and polysaccharide-dependent activation of the Na+-type MotPS stator in the Bacillus subtilis flagellar motor.

Sci Rep 7:46081  2017 PMID:28378843 DOI:10.1038/srep46081

Renault, T.T., Abraham, A.O., Bergmiller, T., Parados, G., Rainville, S., Charpentier, E., Guet, C.C., Tu, Y., Namba, K., Keener, J.P., Minamino, T. & Erhardt, M.

Bacterial flagella grow through an injection-diffusion mechanism.

eLife 6:e23136  2017 PMID:28262091 DOI:10.7554/eLife.23136

Morimoto, Y.V., Namba, K. & Minamino, T.

Measurements of free-swimming speed of motile Salmonella cells in liquid media.

Bio-protocol 7(1):e2093  2017 DOI:10.21769/BioProtoc.2093

Morimoto, Y.V., Namba, K. & Minamino, T.

Bacterial intracellular sodium ion measurement using CoroNa Green.

Bio-protocol 7(1):e2092  2017 DOI:10.21769/BioProtoc.2092

Fujii T, Kato T, Hiraoka KD, Miyata T, Minamino T, Chevance FF, Hughes KT, Namba K

Identical folds used for distinct mechanical functions of the bacterial flagellar rod and hook.

Nat. Commun. 8:14276  2017 PMID:28120828 DOI:10.1038/ncomms14276

Fujii T, Namba K.

Structure of actomyosin rigour complex at 5.2-_ resolution and insights into the ATPase cycle mechanism

Nat. Commun. 8:13969  2017 PMID:28067235 DOI:10.1038/ncomms13969

2016

Morimoto YV, Kami-Ike N, Miyata T, Kawamoto A, Kato T, Namba K, Minamino T

High-resolution pH imaging of living bacterial cell to detect local pH differences.

mBio 7(6)  2016 PMID:27923921 DOI:10.1128/mBio.01911-16

Makino, F., Shen, D., Kajimura, N., Kawamoto, A., Pissaridou, P., Oswin, H., Pain M., Murillo, I., Namba, K. & Blocker, A.J.

The architecture of the cytoplasmic region of type III secretion systems.

Sci Rep 6:33341  2016 PMID:27686865 DOI:10.1038/srep33341

Furukawa, Y., Inoue, Y., Sakaguchi, A., Mori, Y., Fukumura, T., Miyata, T., Namba, K. & Minamino, T.

Structural stability of flagellin subunit affects the rate of flagellin export in the absence of FliS chaperone.

Mol. Microbiol. 102(3):405-416  2016 PMID:27461872 DOI:10.1111/mmi.13469

Takekawa, N., Terahara, N., Kato, T., Gohara, M., Mayanagi, K., Hijikata, A., Onoue, Y., Kojima, S., Shirai, T., Namba, K. & Homma, M.

The terameric MotA complex as the core of the flagellar motor stator from hyperthermophilic bacterium.

Sci Rep 6:31526  2016 PMID:27531865 DOI:10.1038/srep31526

Kawakita, Y., Kinoshita, M., Furukawa, Y., Tulum, I., Katayama, E., Namba, K. & Miyata, M.

Structural study of MPN387, an essential protein for gliding motility of a human pathogenic bacterium, Mycoplasma pneumonia.

J. Bacteriol. 198:2352-2359  2016 PMID:27325681 DOI:10.1128/JB.00160-16

Matsunami, H., Yoon, Y.-H., Meshcheryakov, V.A., Namba, K. & Samatey, F.A.

Structural flexibility of the periplasmic protein, FlgA, regulates flagellar P-ring assembly in Salmonella enterica.

Sci Rep 6:27399  2016 PMID:27273476 DOI:10.10.8/srep27399

Kinoshita, M., Nakanishi, Y., Furukawa, Y., Namba, K., Imada, K. & Minamino, T.

Rearrangements of α-helical structures of FlgN chaperone control the binding affinity for its cognate substrates during flagellar type III export.

Mol. Microbiol. 101:656-670  2016 PMID:27178222 DOI:10.1111/mmi.13415

Kawamoto, A., Matsuo, L., Kato, T., Yamamoto, H., Namba, K., Miyata, M.

Periodicity in attachment organelle revealed by electron cryotomography suggests conformational changes in gliding mechanism of Mycoplasma pneumoniae.

mBio 7(2):e00243-16  2016 PMID:27073090 DOI:10.1128/mBio.00243-16

Imada, K., Minamino, T., Uchida, Y., Kinoshita, M., Namba, K.

Insight into the flagella type III export revealed by the complex structure of the type III ATPase and its regulator.

Proc. Natl. Acad. Sci. U. S. A. 113(13):3633-3638  2016 PMID:26984495 DOI:10.1073/pnas

Baker, M. A. B., Hynson, R. M. G., Ganuelas, L. A., Mohammadi, N. S., Liew, C. W., Rey, A. A., Duff, A. P., Whitten, A. E., Jeffries, C. M., Delalez, N. J., Morimoto, Y. V., Stock, D., Armitage, J. P., Turberfield, A. J., Namba, K., Berry, R. M. & Lee, L. K.

Domain-swap polymerization drives the self-assembly of the bacterial flagellar motor.

Nat. Struct. Mol. Biol. 23:197-203  2016 PMID:26854663 DOI:10.1073/pnas

Minamino, T., Morimoto, Y.V., Hara, N., Aldridge, P.D. , Namba, K.

The bacterial flagellar type III export gate complex is a dual fuel engine that can use both H+ and Na+ for flagellar protein export.

PLoS Pathog. 4;12(3):e1005495  2016 PMID:26943926 DOI:10.1371/journal.ppat.1005495

Minamino, T., Kinoshita, M., Inoue, Y., Morimoto, Y.V., Ihara, K., Koya, S., Hara, N., Nishioka, N., Kojima, S., Homma, M. & Namba, K.

FliH and FliI ensure efficient energy coupling of flagellar type III protein export in Salmonella.

MicrobiologyOpen 5(3):424-35  2016 PMID:26916245 DOI:10.1002/mbo3.340

Komatsu, H., Hayashi, F., Sasa, M., Shikata, K., Yamaguchi, S., Namba, K. & Oosawa, K.

Genetic analysis of revertants isolated from the rod-fragile fliF mutant of Salmonella.

Biophysics and Physicobiology 13:13-25  2016 PMID:27924254 DOI:10.2142/biophysico.13.0_13

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Contact

JEOL YOKOGUSHI Research Alliance Laboratories, Graduate School of Frontier Biosciences, Osaka University,
1-3 Yamadaoka, Suita, Osaka 565-0871 Japan

TEL: +81-6-6879-4625

E-mail: keiichi[at]fbs.osaka-u.ac.jp (SA Prof. Keiichi Namba)

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