1NPE
 
 | | Crystal structure of Nidogen/Laminin Complex | | Descriptor: | CADMIUM ION, Laminin gamma-1 chain, nidogen | | Authors: | Takagi, J, Yang, Y.T, Liu, J.-H, Wang, J.-H, Springer, T.A. | | Deposit date: | 2003-01-17 | | Release date: | 2003-08-12 | | Last modified: | 2024-10-16 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Complex between nidogen and laminin fragments reveals a paradigmatic
beta-propeller interface
Nature, 424, 2003
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1TYE
 | | Structural basis for allostery in integrins and binding of ligand-mimetic therapeutics to the platelet receptor for fibrinogen | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, CACODYLATE ION, CALCIUM ION, ... | | Authors: | Xiao, T, Takagi, J, Coller, B.S, Wang, J.-H, Springer, T.A. | | Deposit date: | 2004-07-07 | | Release date: | 2004-10-12 | | Last modified: | 2024-10-09 | | Method: | X-RAY DIFFRACTION (2.9 Å) | | Cite: | Structural basis for allostery in integrins and binding to fibrinogen-mimetic therapeutics
Nature, 432, 2004
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7NWL
 | | Cryo-EM structure of human integrin alpha5beta1 (open form) in complex with fibronectin and TS2/16 Fv-clasp | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-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, Integrin alpha-5, ... | | Authors: | Schumacher, S, Dedden, D, Vazquez Nunez, R, Matoba, K, Takagi, J, Biertumpfel, C, Mizuno, N. | | Deposit date: | 2021-03-17 | | Release date: | 2021-06-02 | | Last modified: | 2024-11-13 | | Method: | ELECTRON MICROSCOPY (3.1 Å) | | Cite: | Structural insights into integrin alpha 5 beta 1 opening by fibronectin ligand.
Sci Adv, 7, 2021
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7NXD
 | | Cryo-EM structure of human integrin alpha5beta1 in the half-bent conformation | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-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, ... | | Authors: | Schumacher, S, Dedden, D, Vazquez Nunez, R, Matoba, K, Takagi, J, Biertumpfel, C, Mizuno, N. | | Deposit date: | 2021-03-18 | | Release date: | 2021-08-25 | | Last modified: | 2024-10-23 | | Method: | ELECTRON MICROSCOPY (4.6 Å) | | Cite: | Structural insights into integrin alpha 5 beta 1 opening by fibronectin ligand.
Sci Adv, 7, 2021
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3WSY
 | | SorLA Vps10p domain in complex with its own propeptide fragment | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Sortilin-related receptor, peptide from Sortilin-related receptor | | Authors: | Kitago, Y, Nakata, Z, Nagae, M, Nogi, T, Takagi, J. | | Deposit date: | 2014-03-30 | | Release date: | 2015-02-04 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (3.11 Å) | | Cite: | Structural basis for amyloidogenic peptide recognition by sorLA.
Nat.Struct.Mol.Biol., 22, 2015
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6LCS
 | | Crystal structure of 73MuL9 Fv-clasp fragment in complex with GA-pyridine analogue | | Descriptor: | (2~{S})-6-[4-(hydroxymethyl)-3-oxidanyl-pyridin-1-ium-1-yl]-2-(phenylmethoxycarbonylamino)hexanoic acid, PHOSPHATE ION, VH-SARAH, ... | | Authors: | Nakamura, T, Takagi, J, Yamagata, Y, Morioka, H. | | Deposit date: | 2019-11-19 | | Release date: | 2020-11-25 | | Last modified: | 2024-11-13 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Molecular recognition of a single-chain Fv antibody specific for GA-pyridine, an advanced glycation end-product (AGE), elucidated using biophysical techniques and synthetic antigen analogues.
J.Biochem., 170, 2021
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6AHY
 | | Wnt signaling 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, CHLORIDE ION, ... | | Authors: | Hirai, H, Arimori, T, Matoba, K, Mihara, E, Takagi, J. | | Deposit date: | 2018-08-21 | | Release date: | 2019-05-01 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Crystal structure of a mammalian Wnt-frizzled complex.
Nat.Struct.Mol.Biol., 26, 2019
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3GHM
 | | Crystal structure of the exosite-containing fragment of human ADAMTS13 (form-1) | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, A disintegrin and metalloproteinase with thrombospondin motifs 13, ... | | Authors: | Akiyama, M, Takeda, S, Kokame, K, Takagi, J, Miyata, T. | | Deposit date: | 2009-03-04 | | Release date: | 2009-10-27 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Crystal structures of the non-catalytic domains of ADAMTS13 reveal multiple discontinuous exosites for von Willebrand factor
To be Published
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3GHN
 | | Crystal structure of the exosite-containing fragment of human ADAMTS13 (form-2) | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, A disintegrin and metalloproteinase with thrombospondin motifs 13, ... | | Authors: | Akiyama, M, Takeda, S, Kokame, K, Takagi, J, Miyata, T. | | Deposit date: | 2009-03-04 | | Release date: | 2009-10-27 | | Last modified: | 2024-11-20 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Crystal structures of the non-catalytic domains of ADAMTS13 reveal multiple discontinuous exosites for von Willebrand factor
To be Published
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8JYR
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8JYQ
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6JI1
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6LZ9
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1L0Q
 | | Tandem YVTN beta-propeller and PKD domains from an archaeal surface layer protein | | Descriptor: | Surface layer protein | | Authors: | Jing, H, Takagi, J, Liu, J.-H, Lindgren, S, Zhang, R.-G, Joachimiak, A, Wang, J.-H, Springer, T.A. | | Deposit date: | 2002-02-12 | | Release date: | 2002-11-06 | | Last modified: | 2025-03-26 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Archaeal Surface Layer Proteins Contain beta Propeller, PKD, and beta Helix Domains and Are Related to Metazoan Cell Surface Proteins.
Structure, 10, 2002
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5B4W
 | | Crystal structure of Plexin inhibitor complex | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Plexin-B1, Synthesized cyclic peptide | | Authors: | Matsunaga, Y, Kitago, Y, Arimori, T, Takagi, J. | | Deposit date: | 2016-04-19 | | Release date: | 2016-12-28 | | Last modified: | 2024-11-06 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Allosteric Inhibition of a Semaphorin 4D Receptor Plexin B1 by a High-Affinity Macrocyclic Peptide
Cell Chem Biol, 23, 2016
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5B4X
 | | Crystal structure of the ApoER2 ectodomain in complex with the Reelin R56 fragment | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, CALCIUM ION, Low density lipoprotein receptor-related protein 8, ... | | Authors: | Yasui, N, Hirai, H, Yamashita, K, Takagi, J, Nogi, T. | | Deposit date: | 2016-04-20 | | Release date: | 2017-04-26 | | Last modified: | 2024-10-16 | | Method: | X-RAY DIFFRACTION (3.2 Å) | | Cite: | Crystal structure of the ectodomain from a LDLR close homologue in complex with its physiological ligand.
To Be Published
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5GKR
 | | Crystal structure of SLE patient-derived anti-DNA antibody in complex with oligonucleotide | | Descriptor: | DNA (5'-D(P*TP*TP*TP*T)-3'), IgG2, Fab (heavy chain), ... | | Authors: | Arimori, T, Sakakibara, S, Kikutani, H, Takagi, J. | | Deposit date: | 2016-07-05 | | Release date: | 2017-07-05 | | Last modified: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Clonal evolution and antigen recognition of anti-nuclear antibodies in acute systemic lupus erythematosus
Sci Rep, 7, 2017
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5GKS
 | | Crystal structure of SLE patient-derived anti-DNA antibody | | Descriptor: | IgG2, Fab (heavy chain), PHOSPHATE ION, ... | | Authors: | Arimori, T, Sakakibara, S, Kikutani, H, Takagi, J. | | Deposit date: | 2016-07-05 | | Release date: | 2017-07-05 | | Last modified: | 2024-11-06 | | Method: | X-RAY DIFFRACTION (2.05 Å) | | Cite: | Clonal evolution and antigen recognition of anti-nuclear antibodies in acute systemic lupus erythematosus
Sci Rep, 7, 2017
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3WSX
 | | SorLA Vps10p domain in ligand-free form | | Descriptor: | 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, PHOSPHATE ION, ... | | Authors: | Kitago, Y, Nakata, Z, Nagae, M, Nogi, T, Takagi, J. | | Deposit date: | 2014-03-30 | | Release date: | 2015-02-04 | | Last modified: | 2024-11-20 | | Method: | X-RAY DIFFRACTION (2.35 Å) | | Cite: | Structural basis for amyloidogenic peptide recognition by sorLA.
Nat.Struct.Mol.Biol., 22, 2015
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3WSZ
 | | SorLA Vps10p domain in complex with Abeta-derived peptide | | Descriptor: | 10-mer peptide, 2-acetamido-2-deoxy-beta-D-glucopyranose, Sortilin-related receptor | | Authors: | Kitago, Y, Nakata, Z, Nagae, M, Nogi, T, Takagi, J. | | Deposit date: | 2014-03-30 | | Release date: | 2015-02-04 | | Last modified: | 2024-11-20 | | Method: | X-RAY DIFFRACTION (3.201 Å) | | Cite: | Structural basis for amyloidogenic peptide recognition by sorLA.
Nat.Struct.Mol.Biol., 22, 2015
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3WKL
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5GIS
 | | Crystal structure of a Fab fragment with its ligand peptide | | Descriptor: | Heavy chain of Fab fragment, Light chain of Fab fragment, SULFATE ION, ... | | Authors: | Kitago, Y, Kaneko, K.K, Ogasawara, S, Kato, Y, Takagi, J. | | Deposit date: | 2016-06-24 | | Release date: | 2016-09-14 | | Last modified: | 2024-11-13 | | Method: | X-RAY DIFFRACTION (1.93 Å) | | Cite: | Structural basis for multi-specific peptide recognition by the anti-IDH1/2 monoclonal antibody, MsMab-1.
Biochem. Biophys. Res. Commun., 478, 2016
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5GIR
 | | Crystal structure of a Fab fragment with its ligand peptide | | Descriptor: | 1,2-ETHANEDIOL, Heavy chain of Fab fragment, LYS-PRO-ILE-ILE-ILE-GLY-SER-HIS-ALA-TYR-GLY-ASP, ... | | Authors: | Kitago, Y, Kaneko, K.K, Ogasawara, S, Kato, Y, Takagi, J. | | Deposit date: | 2016-06-24 | | Release date: | 2016-09-14 | | Last modified: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (1.93 Å) | | Cite: | Structural basis for multi-specific peptide recognition by the anti-IDH1/2 monoclonal antibody, MsMab-1.
Biochem. Biophys. Res. Commun., 478, 2016
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5GJE
 | | Three-dimensional reconstruction of human LRP6 ectodomain complexed with Dkk1 | | 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: | Matoba, K, Mihara, E, Tamura-Kawakami, K, Hirai, H, Thompson, S, Iwasaki, K, Takagi, J. | | Deposit date: | 2016-06-29 | | Release date: | 2017-01-18 | | Last modified: | 2024-10-23 | | Method: | ELECTRON MICROSCOPY (21 Å) | | Cite: | Conformational Freedom of the LRP6 Ectodomain Is Regulated by N-glycosylation and the Binding of the Wnt Antagonist Dkk1
Cell Rep, 18, 2017
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3NKP
 | | Crystal structure of mouse autotaxin in complex with 18:1-LPA | | Descriptor: | (2R)-2-hydroxy-3-(phosphonooxy)propyl (9E)-octadec-9-enoate, 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... | | Authors: | Nishimasu, H, Ishitani, R, Mihara, E, Takagi, J, Aoki, J, Nureki, O. | | Deposit date: | 2010-06-20 | | Release date: | 2011-01-19 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (1.751 Å) | | Cite: | Crystal structure of autotaxin and insight into GPCR activation by lipid mediators
Nat.Struct.Mol.Biol., 18, 2011
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