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  1. AU="Junichi Takagi"
  2. AU="Aitor Rodriguez-Casanova"
  3. AU="Wimpenny, Claire"
  4. AU=Gao W J
  5. AU="Suarez-Almazor, Maria E"
  6. AU="Barciszewski, Jakub"
  7. AU=Madhusoodanan Jyoti
  8. AU="Korbecki, Jan"

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  1. Artikel ; Online: Dissection of α4β7 integrin regulation by Rap1 using novel conformation-specific monoclonal anti-β7 antibodies

    Tsuyoshi Sato / Sayaka Ishihara / Ryoya Marui / Junichi Takagi / Koko Katagiri

    Scientific Reports, Vol 10, Iss 1, Pp 1-

    2020  Band 16

    Abstract: Abstract Integrin activation is associated with conformational regulation. In this study, we developed a system to evaluate conformational changes in α4β7 integrin. We first inserted the PA tag into the plexin-semaphorin-integrin (PSI) domain of β7 chain, ...

    Abstract Abstract Integrin activation is associated with conformational regulation. In this study, we developed a system to evaluate conformational changes in α4β7 integrin. We first inserted the PA tag into the plexin-semaphorin-integrin (PSI) domain of β7 chain, which reacted with an anti-PA tag antibody (NZ-1) in an Mn2+-dependent manner. The small GTPase Rap1 deficiency, as well as chemokine stimulation and the introduction of the active form of Rap1, Rap1V12, enhanced the binding of NZ-1 to the PA-tagged mutant integrin, and increased the binding affinity to mucosal addressing cell adhesion molecule-1 (MAdCAM-1). Furthermore, we generated two kinds of hybridomas producing monoclonal antibodies (mAbs) that recognized Mn2+-dependent epitopes of β7. Both epitopes were exposed to bind to mAbs on the cells by the introduction of Rap1V12. Although one epitope in the PSI domain of β7 was exposed on Rap1-deficienct cells, the other epitope in the hybrid domain of β7 was not. These data indicate that the conversion of Rap1-GDP to GTP exerts two distinct effects stepwise on the conformation of α4β7. The induction of colitis by Rap1-deficient CD4+ effector/memory T cells suggests that the removal of constraining effect by Rap1-GDP on α4β7 is sufficient for homing of these pathogenic T cells into colon lamina propria (LP).
    Schlagwörter Medicine ; R ; Science ; Q
    Thema/Rubrik (Code) 570
    Sprache Englisch
    Erscheinungsdatum 2020-08-01T00:00:00Z
    Verlag Nature Publishing Group
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  2. Artikel ; Online: Functional role of the Frizzled linker domain in the Wnt signaling pathway

    Seung-Bum Ko / Emiko Mihara / Yedarm Park / Kyeonghwan Roh / Chanhee Kang / Junichi Takagi / Injin Bang / Hee-Jung Choi

    Communications Biology, Vol 5, Iss 1, Pp 1-

    2022  Band 12

    Abstract: The linker domain of Frizzled receptors has a varying effect on the functional levels of canonical and non-canonical Wnt signaling, with FZD chimeras influencing the binding of Wnt proteins and the recruitment of proteins regulating downstream signaling. ...

    Abstract The linker domain of Frizzled receptors has a varying effect on the functional levels of canonical and non-canonical Wnt signaling, with FZD chimeras influencing the binding of Wnt proteins and the recruitment of proteins regulating downstream signaling.
    Schlagwörter Biology (General) ; QH301-705.5
    Sprache Englisch
    Erscheinungsdatum 2022-05-01T00:00:00Z
    Verlag Nature Portfolio
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  3. Artikel ; Online: 2D hybrid analysis

    Atsushi Matsumoto / Naoyuki Miyazaki / Junichi Takagi / Kenji Iwasaki

    Scientific Reports, Vol 7, Iss 1, Pp 1-

    Approach for building three-dimensional atomic model by electron microscopy image matching

    2017  Band 12

    Abstract: Abstract In this study, we develop an approach termed “2D hybrid analysis” for building atomic models by image matching from electron microscopy (EM) images of biological molecules. The key advantage is that it is applicable to flexible molecules, which ... ...

    Abstract Abstract In this study, we develop an approach termed “2D hybrid analysis” for building atomic models by image matching from electron microscopy (EM) images of biological molecules. The key advantage is that it is applicable to flexible molecules, which are difficult to analyze by 3DEM approach. In the proposed approach, first, a lot of atomic models with different conformations are built by computer simulation. Then, simulated EM images are built from each atomic model. Finally, they are compared with the experimental EM image. Two kinds of models are used as simulated EM images: the negative stain model and the simple projection model. Although the former is more realistic, the latter is adopted to perform faster computations. The use of the negative stain model enables decomposition of the averaged EM images into multiple projection images, each of which originated from a different conformation or orientation. We apply this approach to the EM images of integrin to obtain the distribution of the conformations, from which the pathway of the conformational change of the protein is deduced.
    Schlagwörter Medicine ; R ; Science ; Q
    Sprache Englisch
    Erscheinungsdatum 2017-03-01T00:00:00Z
    Verlag Nature Portfolio
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  4. Artikel ; Online: Direct Cryo-ET observation of platelet deformation induced by SARS-CoV-2 spike protein

    Christopher Cyrus Kuhn / Nirakar Basnet / Satish Bodakuntla / Pelayo Alvarez-Brecht / Scott Nichols / Antonio Martinez-Sanchez / Lorenzo Agostini / Young-Min Soh / Junichi Takagi / Christian Biertümpfel / Naoko Mizuno

    Nature Communications, Vol 14, Iss 1, Pp 1-

    2023  Band 14

    Abstract: SARS-CoV-2 infection can cause coagulopathic events. Kuhn et al. show by cryo-ET how the Spike protein impacts platelet morphology by binding to the platelet surface, leading to micro-activation; and investigate integrin as possible point of contact. ...

    Abstract SARS-CoV-2 infection can cause coagulopathic events. Kuhn et al. show by cryo-ET how the Spike protein impacts platelet morphology by binding to the platelet surface, leading to micro-activation; and investigate integrin as possible point of contact.
    Schlagwörter Science ; Q
    Sprache Englisch
    Erscheinungsdatum 2023-02-01T00:00:00Z
    Verlag Nature Portfolio
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  5. Artikel ; Online: Structural mechanism of laminin recognition by integrin

    Takao Arimori / Naoyuki Miyazaki / Emiko Mihara / Mamoru Takizawa / Yukimasa Taniguchi / Carlos Cabañas / Kiyotoshi Sekiguchi / Junichi Takagi

    Nature Communications, Vol 12, Iss 1, Pp 1-

    2021  Band 13

    Abstract: Recognition of laminin by integrin receptors mediates epithelial cell adhesion to basement membrane. Here, the structures of the α6β1 integrin alone and in complex with three-chain laminin-511 fragment reveal the laminin-integrin interface in molecular ... ...

    Abstract Recognition of laminin by integrin receptors mediates epithelial cell adhesion to basement membrane. Here, the structures of the α6β1 integrin alone and in complex with three-chain laminin-511 fragment reveal the laminin-integrin interface in molecular detail.
    Schlagwörter Science ; Q
    Sprache Englisch
    Erscheinungsdatum 2021-06-01T00:00:00Z
    Verlag Nature Portfolio
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  6. Artikel ; Online: De novo peptide grafting to a self-assembling nanocapsule yields a hepatocyte growth factor receptor agonist

    Yamato Komatsu / Naohiro Terasaka / Katsuya Sakai / Emiko Mihara / Risa Wakabayashi / Kunio Matsumoto / Donald Hilvert / Junichi Takagi / Hiroaki Suga

    iScience, Vol 24, Iss 11, Pp 103302- (2021)

    2021  

    Abstract: Summary: Lasso-grafting (LG) technology is a method for generating de novo biologics (neobiologics) by genetically implanting macrocyclic peptide pharmacophores, which are selected in vitro against a protein of interest, into loops of arbitrary protein ... ...

    Abstract Summary: Lasso-grafting (LG) technology is a method for generating de novo biologics (neobiologics) by genetically implanting macrocyclic peptide pharmacophores, which are selected in vitro against a protein of interest, into loops of arbitrary protein scaffolds. In this study, we have generated a neo-capsid that potently binds the hepatocyte growth factor receptor MET by LG of anti-MET peptide pharmacophores into a circularly permuted variant of Aquifex aeolicus lumazine synthase (AaLS), a self-assembling protein nanocapsule. By virtue of displaying multiple-pharmacophores on its surface, the neo-capsid can induce dimerization (or multimerization) of MET, resulting in phosphorylation and endosomal internalization of the MET-capsid complex. This work demonstrates the potential of the LG technology as a synthetic biology approach for generating capsid-based neobiologics capable of activating signaling receptors.
    Schlagwörter Peptides ; Biotechnology ; Synthetic biology ; Science ; Q
    Sprache Englisch
    Erscheinungsdatum 2021-11-01T00:00:00Z
    Verlag Elsevier
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  7. Artikel ; Online: Simultaneous observation of intermittent locomotion of multiple fish by fine-scale spatiotemporal three-dimensional positioning.

    Junichi Takagi / Kotaro Ichikawa / Nobuaki Arai / Yoshinori Miyamoto / Keiichi Uchida / Jun Shoji / Hiromichi Mitamura

    PLoS ONE, Vol 13, Iss 7, p e

    2018  Band 0201029

    Abstract: Recent advances in biotelemetry techniques, especially positioning methods, have revealed the detailed behaviour and movement of aquatic organisms. Behavioural intermittence in animal locomotion, such as the Lévy walk, is a popular topic in the field of ... ...

    Abstract Recent advances in biotelemetry techniques, especially positioning methods, have revealed the detailed behaviour and movement of aquatic organisms. Behavioural intermittence in animal locomotion, such as the Lévy walk, is a popular topic in the field of movement ecology. Previous attempts to describe intermittent locomotion quantitatively have been constrained by the spatial and temporal resolution possible with conventional biotelemetry systems. This study developed a fine-scale spatiotemporal three-dimensional positioning method using a new biotelemetry system with a positional precision of <10 cm and positioning interval of <10 s. Using this proposed positioning method, the intermittent stop-and-go locomotion of Siebold's wrasses (Pseudolabrus sieboldi) was observed during travel from an unsuitable to a suitable location following displacement. The fish displayed behavioural intermittence in relocating to a suitable location. Initially, their movement halted for reorientation, after which they moved intermittently yet in a straight line to the suitable location. To test the positioning ability of the proposed method, data sets were resampled at intervals of 5, 10, 30, 60, and 300 s. Longer sampling intervals failed to identify reorientations and underestimated the number of stops, distance travelled, and speed. Overall, the results highlighted the adequacy and ability of the proposed positioning method to observe the intermittent locomotion of fish, such as stop-and-go behaviour, in a natural environment.
    Schlagwörter Medicine ; R ; Science ; Q
    Sprache Englisch
    Erscheinungsdatum 2018-01-01T00:00:00Z
    Verlag Public Library of Science (PLoS)
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  8. Artikel ; Online: Lasso-grafting of macrocyclic peptide pharmacophores yields multi-functional proteins

    Emiko Mihara / Satoshi Watanabe / Nasir K. Bashiruddin / Nozomi Nakamura / Kyoko Matoba / Yumi Sano / Rumit Maini / Yizhen Yin / Katsuya Sakai / Takao Arimori / Kunio Matsumoto / Hiroaki Suga / Junichi Takagi

    Nature Communications, Vol 12, Iss 1, Pp 1-

    2021  Band 12

    Abstract: RaPID (Random non-standard Peptides Integrated Discovery) enables discovery of small macrocyclic peptides binding desired targets. Here, the authors propose lasso-grafting: the RaPID-derived peptides are implanted onto diverse proteins and maintain both ... ...

    Abstract RaPID (Random non-standard Peptides Integrated Discovery) enables discovery of small macrocyclic peptides binding desired targets. Here, the authors propose lasso-grafting: the RaPID-derived peptides are implanted onto diverse proteins and maintain both the binding properties of the cyclic peptide and the host protein function.
    Schlagwörter Science ; Q
    Sprache Englisch
    Erscheinungsdatum 2021-03-01T00:00:00Z
    Verlag Nature Portfolio
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  9. Artikel: Stomach Contents of Three Sea Kraits (Hydrophiinae: Laticauda spp.) in the Ryukyu Islands, Japan

    Tabata, Runa / Fumihito Tashiro / Hideaki Nishizawa / Hiromichi Mitamura / Junichi Takagi / Noriko Kidera

    Current herpetology. 2017 Aug., v. 36, no. 2

    2017  

    Abstract: We collected stomach contents of sea kraits, Laticauda laticaudata, L. colubrina, and L. semifasciata around Ishigaki and Iriomote Islands of the southern Ryukyu Islands, Japan. Twelve species belonging to three families of Anguilliformes (Congridae, ... ...

    Abstract We collected stomach contents of sea kraits, Laticauda laticaudata, L. colubrina, and L. semifasciata around Ishigaki and Iriomote Islands of the southern Ryukyu Islands, Japan. Twelve species belonging to three families of Anguilliformes (Congridae, Muraenidae, and Ophichthidae) were detected as prey of fifteen individuals of L. laticaudata and seven individuals of L. colubrina. On the other hand, four species of the families Labridae, Opistognathidae, and Ptereleotridae were found in the stomach of three individuals of L. semifasciata. These results indicate that L. laticaudata and L. colubrina around the northern limit of their distribution (Ryukyu Islands, Japan) preyed upon anguilliform fish, as previously found at the southern limit of their distribution (Vanuatu and New Caledonia), whereas L. semifasciata consumed various families of fish other than Anguilliformes, as reported in Taiwan. Thus, it is confirmed that L. laticaudata and L. colubrina are specialist predators on anguilliform fish (eels) and that L. semifasciata is a generalist that consumes various fishes in tropical and subtropical coastal waters. The differences in prey species among these three sea kraits may not be due to geographical variation of prey availability.
    Schlagwörter coastal water ; Congridae ; eel ; geographical variation ; islands ; Labridae ; Laticauda ; Muraenidae ; Ophichthidae ; Opistognathidae ; predators ; prey species ; stomach ; New Caledonia ; Ryukyu Archipelago ; Taiwan ; Vanuatu
    Sprache Englisch
    Erscheinungsverlauf 2017-08
    Umfang p. 127-134.
    Erscheinungsort UniBio Press
    Dokumenttyp Artikel
    ZDB-ID 2276299-1
    ISSN 1881-1019 ; 1345-5834
    ISSN (online) 1881-1019
    ISSN 1345-5834
    DOI 10.5358/hsj.36.127
    Datenquelle NAL Katalog (AGRICOLA)

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  10. Artikel ; Online: Off-axis rotor in Enterococcus hirae V-ATPase visualized by Zernike phase plate single-particle cryo-electron microscopy

    Jun Tsunoda / Chihong Song / Fabiana Lica Imai / Junichi Takagi / Hiroshi Ueno / Takeshi Murata / Ryota Iino / Kazuyoshi Murata

    Scientific Reports, Vol 8, Iss 1, Pp 1-

    2018  Band 10

    Abstract: Abstract EhV-ATPase is an ATP-driven Na+ pump in the eubacteria Enterococcus hirae (Eh). Here, we present the first entire structure of detergent-solubilized EhV-ATPase by single-particle cryo-electron microscopy (cryo-EM) using Zernike phase plate. The ... ...

    Abstract Abstract EhV-ATPase is an ATP-driven Na+ pump in the eubacteria Enterococcus hirae (Eh). Here, we present the first entire structure of detergent-solubilized EhV-ATPase by single-particle cryo-electron microscopy (cryo-EM) using Zernike phase plate. The cryo-EM map dominantly showed one of three catalytic conformations in this rotary enzyme. To further stabilize the originally heterogeneous structure caused by the ATP hydrolysis states of the V1-ATPases, a peptide epitope tag system was adopted, in which the inserted peptide epitope sequence interfered with rotation of the central rotor by binding the Fab. As a result, the map unexpectedly showed another catalytic conformation of EhV-ATPase. Interestingly, these two conformations identified with and without Fab conversely coincided with those of the minor state 2 and the major state 1 of Thermus thermophilus V/A-ATPase, respectively. The most prominent feature in EhV-ATPase was the off-axis rotor, where the cytoplasmic V1 domain was connected to the transmembrane Vo domain through the off-axis central rotor. Furthermore, compared to the structure of ATP synthases, the larger size of the interface between the transmembrane a-subunit and c-ring of EhV-ATPase would be more advantageous for active ion pumping.
    Schlagwörter Medicine ; R ; Science ; Q
    Thema/Rubrik (Code) 500
    Sprache Englisch
    Erscheinungsdatum 2018-10-01T00:00:00Z
    Verlag Nature Publishing Group
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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