5Y31
 
 | | Crystal structure of human LGI1-ADAM22 complex | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, Disintegrin and metalloproteinase domain-containing protein 22, ... | | Authors: | Yamagata, A, Fukai, S. | | Deposit date: | 2017-07-27 | | Release date: | 2018-05-02 | | Last modified: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (7.125 Å) | | Cite: | Structural basis of epilepsy-related ligand-receptor complex LGI1-ADAM22.
Nat Commun, 9, 2018
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5Y2Z
 | | Crystal structure of human LGI1 EPTP-ADAM22 complex | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, ... | | Authors: | Yamagata, A, Fukai, S. | | Deposit date: | 2017-07-27 | | Release date: | 2018-05-02 | | Last modified: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (2.67 Å) | | Cite: | Structural basis of epilepsy-related ligand-receptor complex LGI1-ADAM22.
Nat Commun, 9, 2018
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2OAP
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2OAQ
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3VHJ
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3A36
 | | Structural insight into the membrane insertion of tail-anchored proteins by Get3 | | Descriptor: | ATPase GET3, ZINC ION | | Authors: | Yamagata, A, Mimura, H, Sato, Y, Yamashita, M, Yoshikawa, A, Fukai, S. | | Deposit date: | 2009-06-10 | | Release date: | 2010-01-12 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Structural insight into the membrane insertion of tail-anchored proteins by Get3
Genes Cells, 15, 2010
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3A37
 | | Structural insight into the membrane insertion of tail-anchored proteins by Get3 | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, ATPase GET3, ZINC ION | | Authors: | Yamagata, A, Mimura, H, Sato, Y, Yamashita, M, Yoshikawa, A, Fukai, S. | | Deposit date: | 2009-06-10 | | Release date: | 2010-01-12 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Structural insight into the membrane insertion of tail-anchored proteins by Get3
Genes Cells, 15, 2010
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3JSV
 | | Crystal structure of mouse NEMO CoZi in complex with Lys63-linked di-ubiquitin | | Descriptor: | NF-kappa-B essential modulator, Ubiquitin | | Authors: | Yoshikawa, A, Sato, Y, Mimura, H, Yamashita, M, Yamagata, A, Fukai, S. | | Deposit date: | 2009-09-11 | | Release date: | 2009-10-27 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (2.7 Å) | | Cite: | Crystal structure of the NEMO ubiquitin-binding domain in complex with Lys 63-linked di-ubiquitin
Febs Lett., 583, 2009
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8J47
 | | CryoEM Structure of 40-Residue Arctic (E22G) Beta-Amyloid Fibril Derived by Co-Analysis with Solid-State NMR | E22G Abeta40 | | Descriptor: | E22G Amyloid-beta | | Authors: | Tehrani, M.J, Matsuda, I, Yamagata, A, Matsunaga, T, Sato, M, Toyooka, K, Shirouzu, M, Ishii, Y, Kodama, Y, McElheny, D, Kobayashi, N. | | Deposit date: | 2023-04-19 | | Release date: | 2024-09-11 | | Last modified: | 2024-09-18 | | Method: | ELECTRON MICROSCOPY (2.5 Å) | | Cite: | E22G A beta 40 fibril structure and kinetics illuminate how A beta 40 rather than A beta 42 triggers familial Alzheimer's.
Nat Commun, 15, 2024
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8B64
 | | Cryo-EM structure of RC-LH1-PufX photosynthetic core complex from Rba. capsulatus | | Descriptor: | 1,2-Distearoyl-sn-glycerophosphoethanolamine, BACTERIOCHLOROPHYLL A, BACTERIOPHEOPHYTIN A, ... | | Authors: | Bracun, L, Yamagata, A, Shirouzu, M, Liu, L.N. | | Deposit date: | 2022-09-26 | | Release date: | 2023-02-01 | | Last modified: | 2024-07-24 | | Method: | ELECTRON MICROSCOPY (2.589 Å) | | Cite: | Cryo-EM structure of a monomeric RC-LH1-PufX supercomplex with high-carotenoid content from Rhodobacter capsulatus.
Structure, 31, 2023
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4WU5
 | | HLA-A24 in complex with HIV-1 Nef134-8(wt) | | Descriptor: | 8-Mer peptide from Protein Nef, Beta-2-microglobulin, HLA class I histocompatibility antigen, ... | | Authors: | Shimizu, A, Yamagata, A, Fukai, S, Iwamoto, A. | | Deposit date: | 2014-10-31 | | Release date: | 2015-05-06 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Crystal structure of Nef134-8(wt) epitope presented by HLA-A24
To Be Published
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4WU7
 | | HLA-A24 in complex with HIV-1 Nef134-8(2F) | | Descriptor: | 8-Mer peptide from Protein Nef, Beta-2-microglobulin, HLA class I histocompatibility antigen, ... | | Authors: | Shimizu, A, Yamagata, A, Fukai, S, Iwamoto, A. | | Deposit date: | 2014-10-31 | | Release date: | 2015-05-06 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.297 Å) | | Cite: | Crystal structure of Nef134-8 epitope presented by HLA-A24
To Be Published
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7XI9
 | | Cryo-EM structure of human DNMT1 (aa:351-1616) in complex with ubiquitinated H3 and hemimethylated DNA analog (CXXC-ordered form) | | Descriptor: | DNA (5'-D(*AP*CP*TP*TP*AP*(5CM)P*GP*GP*AP*AP*GP*G)-3'), DNA (5'-D(*CP*CP*TP*TP*CP*(C55)P*GP*TP*AP*AP*GP*T)-3'), DNA (cytosine-5)-methyltransferase 1, ... | | Authors: | Onoda, H, Kikuchi, A, Kori, S, Yoshimi, S, Yamagata, A, Arita, K. | | Deposit date: | 2022-04-12 | | Release date: | 2022-11-30 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (2.52 Å) | | Cite: | Structural basis for activation of DNMT1.
Nat Commun, 13, 2022
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7XIB
 | | Cryo-EM structure of human DNMT1 (aa:351-1616) in complex with ubiquitinated H3 and hemimethylated DNA analog (CXXC-disordered form) | | Descriptor: | DNA (5'-D(*AP*CP*TP*TP*AP*(5CM)P*GP*GP*AP*AP*GP*G)-3'), DNA (5'-D(*CP*CP*TP*TP*CP*(C55)P*GP*TP*AP*AP*GP*T)-3'), DNA (cytosine-5)-methyltransferase 1, ... | | Authors: | Onoda, H, Kikuchi, A, Kori, S, Yoshimi, S, Yamagata, A, Arita, K. | | Deposit date: | 2022-04-12 | | Release date: | 2022-11-30 | | Last modified: | 2024-07-03 | | Method: | ELECTRON MICROSCOPY (2.23 Å) | | Cite: | Structural basis for activation of DNMT1.
Nat Commun, 13, 2022
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5GVE
 | | Human TOP3B-TDRD3 complex | | Descriptor: | DNA topoisomerase 3-beta-1, MAGNESIUM ION, Tudor domain-containing protein 3 | | Authors: | Goto-Ito, S, Yamagata, A, Sato, Y, Takahashi, T.S, Fukai, S. | | Deposit date: | 2016-09-05 | | Release date: | 2017-06-14 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.606 Å) | | Cite: | Structural basis of the interaction between Topoisomerase III beta and the TDRD3 auxiliary factor
Sci Rep, 7, 2017
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5GVC
 | | Human Topoisomerase IIIb topo domain | | Descriptor: | DNA topoisomerase 3-beta-1, MAGNESIUM ION | | Authors: | Goto-Ito, S, Yamagata, A, Sato, Y, Takahashi, T.S, Fukai, S. | | Deposit date: | 2016-09-05 | | Release date: | 2017-06-14 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.436 Å) | | Cite: | Structural basis of the interaction between Topoisomerase III beta and the TDRD3 auxiliary factor
Sci Rep, 7, 2017
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5GVD
 | | Human TDRD3 DUF1767-OB domains | | Descriptor: | 1,2-ETHANEDIOL, MAGNESIUM ION, PHOSPHATE ION, ... | | Authors: | Goto-Ito, S, Yamagata, A, Sato, Y, Takahashi, T.S, Fukai, S. | | Deposit date: | 2016-09-05 | | Release date: | 2017-06-14 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.623 Å) | | Cite: | Structural basis of the interaction between Topoisomerase III beta and the TDRD3 auxiliary factor
Sci Rep, 7, 2017
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5B86
 | | Crystal structure of M-Sec | | Descriptor: | Tumor necrosis factor alpha-induced protein 2 | | Authors: | Yamashita, M, Sato, Y, Yamagata, A, Fukai, S. | | Deposit date: | 2016-06-12 | | Release date: | 2016-10-12 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (3.017 Å) | | Cite: | Distinct Roles for the N- and C-terminal Regions of M-Sec in Plasma Membrane Deformation during Tunneling Nanotube Formation.
Sci Rep, 6, 2016
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7DDQ
 | | Structure of RC-LH1-PufX from Rhodobacter veldkampii | | Descriptor: | 1,2-Distearoyl-sn-glycerophosphoethanolamine, Antenna pigment protein alpha chain, Antenna pigment protein beta chain, ... | | Authors: | Bracun, L, Yamagata, A, Shirouzu, M, Liu, L.N. | | Deposit date: | 2020-10-29 | | Release date: | 2021-06-30 | | Last modified: | 2024-03-27 | | Method: | ELECTRON MICROSCOPY (2.84 Å) | | Cite: | Cryo-EM structure of the photosynthetic RC-LH1-PufX supercomplex at 2.8-angstrom resolution.
Sci Adv, 7, 2021
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6IXF
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5H11
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6IXG
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5XWU
 | | Crystal structure of PTPdelta Ig1-Ig3 in complex with SALM2 LRR-Ig | | Descriptor: | 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... | | Authors: | Goto-Ito, S, Yamagata, A, Sato, Y, Fukai, S. | | Deposit date: | 2017-06-30 | | Release date: | 2018-06-06 | | Last modified: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (3.162 Å) | | Cite: | Structural basis of trans-synaptic interactions between PTP delta and SALMs for inducing synapse formation.
Nat Commun, 9, 2018
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5XWT
 | | Crystal structure of PTPdelta Ig1-Fn1 in complex with SALM5 LRR-Ig | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... | | Authors: | Goto-Ito, S, Yamagata, A, Sato, Y, Fukai, S. | | Deposit date: | 2017-06-30 | | Release date: | 2018-06-06 | | Last modified: | 2024-10-16 | | Method: | X-RAY DIFFRACTION (4.178 Å) | | Cite: | Structural basis of trans-synaptic interactions between PTP delta and SALMs for inducing synapse formation.
Nat Commun, 9, 2018
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6IXE
 | | Crystal structure of SeMet apo SH3BP5 (I41) | | Descriptor: | SH3 domain-binding protein 5, SUCCINIC ACID | | Authors: | Goto-Ito, S, Yamagata, A, Sato, Y, Fukai, S. | | Deposit date: | 2018-12-10 | | Release date: | 2019-03-20 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (3.35 Å) | | Cite: | Structural basis of guanine nucleotide exchange for Rab11 by SH3BP5.
Life Sci Alliance, 2, 2019
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