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PDB: 84 件
5Y31
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Crystal structure of human LGI1-ADAM22 complex
分子名称: 2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, Disintegrin and metalloproteinase domain-containing protein 22, ...
著者Yamagata, A, Fukai, S.
登録日2017-07-27
公開日2018-05-02
最終更新日2024-10-23
実験手法X-RAY DIFFRACTION (7.125 Å)
主引用文献Structural basis of epilepsy-related ligand-receptor complex LGI1-ADAM22.
Nat Commun, 9, 2018
5Y2Z
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Crystal structure of human LGI1 EPTP-ADAM22 complex
分子名称: 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, ...
著者Yamagata, A, Fukai, S.
登録日2017-07-27
公開日2018-05-02
最終更新日2024-10-23
実験手法X-RAY DIFFRACTION (2.67 Å)
主引用文献Structural basis of epilepsy-related ligand-receptor complex LGI1-ADAM22.
Nat Commun, 9, 2018
2OAP
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BU of 2oap by Molmil
Crystal structure of the archaeal secretion ATPase GspE in complex with AMP-PNP
分子名称: MAGNESIUM ION, PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER, Type II secretion system protein
著者Yamagata, A, Tainer, J.A.
登録日2006-12-17
公開日2007-02-13
最終更新日2023-12-27
実験手法X-RAY DIFFRACTION (2.95 Å)
主引用文献Hexameric structures of the archaeal secretion ATPase GspE and implications for a universal secretion mechanism.
Embo J., 26, 2007
2OAQ
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BU of 2oaq by Molmil
Crystal structure of the archaeal secretion ATPase GspE in complex with phosphate
分子名称: PHOSPHATE ION, Type II secretion system protein
著者Yamagata, A, Tainer, J.A.
登録日2006-12-17
公開日2007-02-13
最終更新日2024-10-30
実験手法X-RAY DIFFRACTION (3.15 Å)
主引用文献Hexameric structures of the archaeal secretion ATPase GspE and implications for a universal secretion mechanism.
Embo J., 26, 2007
3VHJ
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BU of 3vhj by Molmil
Crystal structure of the cytoplasmic domain of BfpC
分子名称: BfpC
著者Yamagata, A, Tainer, J.A, Donnenberg, M.S.
登録日2011-08-25
公開日2012-05-23
最終更新日2024-10-30
実験手法X-RAY DIFFRACTION (1.9 Å)
主引用文献Structure of an Essential Type IV Pilus Biogenesis Protein Provides Insights into Pilus and Type II Secretion Systems
J.Mol.Biol., 419, 2012
3A36
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BU of 3a36 by Molmil
Structural insight into the membrane insertion of tail-anchored proteins by Get3
分子名称: ATPase GET3, ZINC ION
著者Yamagata, A, Mimura, H, Sato, Y, Yamashita, M, Yoshikawa, A, Fukai, S.
登録日2009-06-10
公開日2010-01-12
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (2.8 Å)
主引用文献Structural insight into the membrane insertion of tail-anchored proteins by Get3
Genes Cells, 15, 2010
3A37
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Structural insight into the membrane insertion of tail-anchored proteins by Get3
分子名称: ADENOSINE-5'-DIPHOSPHATE, ATPase GET3, ZINC ION
著者Yamagata, A, Mimura, H, Sato, Y, Yamashita, M, Yoshikawa, A, Fukai, S.
登録日2009-06-10
公開日2010-01-12
最終更新日2024-03-13
実験手法X-RAY DIFFRACTION (3 Å)
主引用文献Structural insight into the membrane insertion of tail-anchored proteins by Get3
Genes Cells, 15, 2010
3JSV
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BU of 3jsv by Molmil
Crystal structure of mouse NEMO CoZi in complex with Lys63-linked di-ubiquitin
分子名称: NF-kappa-B essential modulator, Ubiquitin
著者Yoshikawa, A, Sato, Y, Mimura, H, Yamashita, M, Yamagata, A, Fukai, S.
登録日2009-09-11
公開日2009-10-27
最終更新日2024-10-30
実験手法X-RAY DIFFRACTION (2.7 Å)
主引用文献Crystal structure of the NEMO ubiquitin-binding domain in complex with Lys 63-linked di-ubiquitin
Febs Lett., 583, 2009
8J47
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CryoEM Structure of 40-Residue Arctic (E22G) Beta-Amyloid Fibril Derived by Co-Analysis with Solid-State NMR | E22G Abeta40
分子名称: E22G Amyloid-beta
著者Tehrani, M.J, Matsuda, I, Yamagata, A, Matsunaga, T, Sato, M, Toyooka, K, Shirouzu, M, Ishii, Y, Kodama, Y, McElheny, D, Kobayashi, N.
登録日2023-04-19
公開日2024-09-11
最終更新日2024-09-18
実験手法ELECTRON MICROSCOPY (2.5 Å)
主引用文献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
8B64
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Cryo-EM structure of RC-LH1-PufX photosynthetic core complex from Rba. capsulatus
分子名称: 1,2-Distearoyl-sn-glycerophosphoethanolamine, BACTERIOCHLOROPHYLL A, BACTERIOPHEOPHYTIN A, ...
著者Bracun, L, Yamagata, A, Shirouzu, M, Liu, L.N.
登録日2022-09-26
公開日2023-02-01
最終更新日2024-07-24
実験手法ELECTRON MICROSCOPY (2.589 Å)
主引用文献Cryo-EM structure of a monomeric RC-LH1-PufX supercomplex with high-carotenoid content from Rhodobacter capsulatus.
Structure, 31, 2023
4WU5
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BU of 4wu5 by Molmil
HLA-A24 in complex with HIV-1 Nef134-8(wt)
分子名称: 8-Mer peptide from Protein Nef, Beta-2-microglobulin, HLA class I histocompatibility antigen, ...
著者Shimizu, A, Yamagata, A, Fukai, S, Iwamoto, A.
登録日2014-10-31
公開日2015-05-06
最終更新日2024-10-30
実験手法X-RAY DIFFRACTION (2.4 Å)
主引用文献Crystal structure of Nef134-8(wt) epitope presented by HLA-A24
To Be Published
4WU7
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BU of 4wu7 by Molmil
HLA-A24 in complex with HIV-1 Nef134-8(2F)
分子名称: 8-Mer peptide from Protein Nef, Beta-2-microglobulin, HLA class I histocompatibility antigen, ...
著者Shimizu, A, Yamagata, A, Fukai, S, Iwamoto, A.
登録日2014-10-31
公開日2015-05-06
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (2.297 Å)
主引用文献Crystal structure of Nef134-8 epitope presented by HLA-A24
To Be Published
7XI9
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Cryo-EM structure of human DNMT1 (aa:351-1616) in complex with ubiquitinated H3 and hemimethylated DNA analog (CXXC-ordered form)
分子名称: 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, ...
著者Onoda, H, Kikuchi, A, Kori, S, Yoshimi, S, Yamagata, A, Arita, K.
登録日2022-04-12
公開日2022-11-30
最終更新日2024-07-03
実験手法ELECTRON MICROSCOPY (2.52 Å)
主引用文献Structural basis for activation of DNMT1.
Nat Commun, 13, 2022
7XIB
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Cryo-EM structure of human DNMT1 (aa:351-1616) in complex with ubiquitinated H3 and hemimethylated DNA analog (CXXC-disordered form)
分子名称: 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, ...
著者Onoda, H, Kikuchi, A, Kori, S, Yoshimi, S, Yamagata, A, Arita, K.
登録日2022-04-12
公開日2022-11-30
最終更新日2024-07-03
実験手法ELECTRON MICROSCOPY (2.23 Å)
主引用文献Structural basis for activation of DNMT1.
Nat Commun, 13, 2022
5GVE
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BU of 5gve by Molmil
Human TOP3B-TDRD3 complex
分子名称: DNA topoisomerase 3-beta-1, MAGNESIUM ION, Tudor domain-containing protein 3
著者Goto-Ito, S, Yamagata, A, Sato, Y, Takahashi, T.S, Fukai, S.
登録日2016-09-05
公開日2017-06-14
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (3.606 Å)
主引用文献Structural basis of the interaction between Topoisomerase III beta and the TDRD3 auxiliary factor
Sci Rep, 7, 2017
5GVC
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BU of 5gvc by Molmil
Human Topoisomerase IIIb topo domain
分子名称: DNA topoisomerase 3-beta-1, MAGNESIUM ION
著者Goto-Ito, S, Yamagata, A, Sato, Y, Takahashi, T.S, Fukai, S.
登録日2016-09-05
公開日2017-06-14
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (2.436 Å)
主引用文献Structural basis of the interaction between Topoisomerase III beta and the TDRD3 auxiliary factor
Sci Rep, 7, 2017
5GVD
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BU of 5gvd by Molmil
Human TDRD3 DUF1767-OB domains
分子名称: 1,2-ETHANEDIOL, MAGNESIUM ION, PHOSPHATE ION, ...
著者Goto-Ito, S, Yamagata, A, Sato, Y, Takahashi, T.S, Fukai, S.
登録日2016-09-05
公開日2017-06-14
最終更新日2023-11-08
実験手法X-RAY DIFFRACTION (1.623 Å)
主引用文献Structural basis of the interaction between Topoisomerase III beta and the TDRD3 auxiliary factor
Sci Rep, 7, 2017
5B86
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BU of 5b86 by Molmil
Crystal structure of M-Sec
分子名称: Tumor necrosis factor alpha-induced protein 2
著者Yamashita, M, Sato, Y, Yamagata, A, Fukai, S.
登録日2016-06-12
公開日2016-10-12
最終更新日2024-10-30
実験手法X-RAY DIFFRACTION (3.017 Å)
主引用文献Distinct Roles for the N- and C-terminal Regions of M-Sec in Plasma Membrane Deformation during Tunneling Nanotube Formation.
Sci Rep, 6, 2016
7DDQ
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BU of 7ddq by Molmil
Structure of RC-LH1-PufX from Rhodobacter veldkampii
分子名称: 1,2-Distearoyl-sn-glycerophosphoethanolamine, Antenna pigment protein alpha chain, Antenna pigment protein beta chain, ...
著者Bracun, L, Yamagata, A, Shirouzu, M, Liu, L.N.
登録日2020-10-29
公開日2021-06-30
最終更新日2024-03-27
実験手法ELECTRON MICROSCOPY (2.84 Å)
主引用文献Cryo-EM structure of the photosynthetic RC-LH1-PufX supercomplex at 2.8-angstrom resolution.
Sci Adv, 7, 2021
6IXF
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BU of 6ixf by Molmil
Crystal structure of SeMet apo SH3BP5 (P41)
分子名称: SH3 domain-binding protein 5
著者Goto-Ito, S, Yamagata, A, Sato, Y, Fukai, S.
登録日2018-12-10
公開日2019-03-20
最終更新日2023-11-22
実験手法X-RAY DIFFRACTION (3.6 Å)
主引用文献Structural basis of guanine nucleotide exchange for Rab11 by SH3BP5.
Life Sci Alliance, 2, 2019
5H11
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BU of 5h11 by Molmil
Crystal structure of Zebrafish Sec10
分子名称: BROMIDE ION, Uncharacterized protein
著者Chen, J, Yamagata, A, Fukai, S.
登録日2016-10-07
公開日2017-02-01
最終更新日2024-03-20
実験手法X-RAY DIFFRACTION (2.732 Å)
主引用文献Crystal structure of Sec10, a subunit of the exocyst complex
Sci Rep, 7, 2017
6IXG
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Crystal structure of native apo SH3BP5 (P41)
分子名称: SH3 domain-binding protein 5
著者Goto-Ito, S, Yamagata, A, Sato, Y, Fukai, S.
登録日2018-12-10
公開日2019-03-20
最終更新日2023-11-22
実験手法X-RAY DIFFRACTION (3.801 Å)
主引用文献Structural basis of guanine nucleotide exchange for Rab11 by SH3BP5.
Life Sci Alliance, 2, 2019
5XWU
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Crystal structure of PTPdelta Ig1-Ig3 in complex with SALM2 LRR-Ig
分子名称: 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, ...
著者Goto-Ito, S, Yamagata, A, Sato, Y, Fukai, S.
登録日2017-06-30
公開日2018-06-06
最終更新日2024-10-23
実験手法X-RAY DIFFRACTION (3.162 Å)
主引用文献Structural basis of trans-synaptic interactions between PTP delta and SALMs for inducing synapse formation.
Nat Commun, 9, 2018
5XWT
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Crystal structure of PTPdelta Ig1-Fn1 in complex with SALM5 LRR-Ig
分子名称: 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, ...
著者Goto-Ito, S, Yamagata, A, Sato, Y, Fukai, S.
登録日2017-06-30
公開日2018-06-06
最終更新日2024-10-16
実験手法X-RAY DIFFRACTION (4.178 Å)
主引用文献Structural basis of trans-synaptic interactions between PTP delta and SALMs for inducing synapse formation.
Nat Commun, 9, 2018
6IXE
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BU of 6ixe by Molmil
Crystal structure of SeMet apo SH3BP5 (I41)
分子名称: SH3 domain-binding protein 5, SUCCINIC ACID
著者Goto-Ito, S, Yamagata, A, Sato, Y, Fukai, S.
登録日2018-12-10
公開日2019-03-20
最終更新日2024-10-30
実験手法X-RAY DIFFRACTION (3.35 Å)
主引用文献Structural basis of guanine nucleotide exchange for Rab11 by SH3BP5.
Life Sci Alliance, 2, 2019

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