5EO7
 
 | | Crystal structure of AOL | | Descriptor: | Predicted protein, SULFATE ION, methyl 1-seleno-alpha-L-fucopyranoside | | Authors: | Kato, R, Kiso, M, Ishida, H, Ando, H, Suzuki, T, Shimabukuro, S, Makyio, H. | | Deposit date: | 2015-11-10 | | Release date: | 2016-06-29 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Six independent fucose-binding sites in the crystal structure of Aspergillus oryzae lectin
Biochem.Biophys.Res.Commun., 477, 2016
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5EO8
 | | Crystal structure of AOL(868) | | Descriptor: | Predicted protein, methyl 1-seleno-beta-L-fucopyranoside | | Authors: | Kato, R, Kiso, M, Ishida, H, Ando, H, Suzuki, T, Shimabukuro, S, Makyio, H. | | Deposit date: | 2015-11-10 | | Release date: | 2016-06-29 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | Six independent fucose-binding sites in the crystal structure of Aspergillus oryzae lectin
Biochem.Biophys.Res.Commun., 477, 2016
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5H47
 | | Crystal structure of AOL complexed with 2-MeSe-Fuc | | Descriptor: | Uncharacterized protein, methyl 6-deoxy-2-Se-methyl-2-seleno-alpha-L-galactopyranoside | | Authors: | Kato, R, Nishikawa, Y, Makyio, H. | | Deposit date: | 2016-10-31 | | Release date: | 2017-01-25 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Synthesis of seleno-fucose compounds and their application to the X-ray structural determination of carbohydrate-lectin complexes using single/multi-wavelength anomalous dispersion phasing
Bioorg. Med. Chem., 25, 2017
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1EE8
 | | CRYSTAL STRUCTURE OF MUTM (FPG) PROTEIN FROM THERMUS THERMOPHILUS HB8 | | Descriptor: | MUTM (FPG) PROTEIN, ZINC ION | | Authors: | Sugahara, M, Mikawa, T, Kumasaka, T, Yamamoto, M, Kato, R, Fukuyama, K, Inoue, Y, Kuramitsu, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2000-01-31 | | Release date: | 2001-01-31 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Crystal structure of a repair enzyme of oxidatively damaged DNA, MutM (Fpg), from an extreme thermophile, Thermus thermophilus HB8.
EMBO J., 19, 2000
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4OWF
 | | Crystal structure of the NEMO CoZi in complex with HOIP NZF1 domain | | Descriptor: | E3 ubiquitin-protein ligase RNF31, NF-kappa-B essential modulator, ZINC ION | | Authors: | Rahighi, S, Fujita, H, Kawasaki, M, Kato, R, Iwai, K, Wakatsuki, S. | | Deposit date: | 2014-01-31 | | Release date: | 2014-02-12 | | Last modified: | 2023-09-27 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Mechanism Underlying I kappa B Kinase Activation Mediated by the Linear Ubiquitin Chain Assembly Complex.
Mol.Cell.Biol., 34, 2014
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1D2M
 | | UVRB PROTEIN OF THERMUS THERMOPHILUS HB8; A NUCLEOTIDE EXCISION REPAIR ENZYME | | Descriptor: | EXCINUCLEASE ABC SUBUNIT B, SULFATE ION, octyl beta-D-glucopyranoside | | Authors: | Nakagawa, N, Sugahara, M, Masui, R, Kato, R, Fukuyama, K, Kuramitsu, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 1999-09-25 | | Release date: | 2000-03-22 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Crystal structure of Thermus thermophilus HB8 UvrB protein, a key enzyme of nucleotide excision repair.
J.Biochem.(Tokyo), 126, 1999
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1O3Y
 | | Crystal structure of mouse ARF1 (delta17-Q71L), GTP form | | Descriptor: | ADP-ribosylation factor 1, GUANOSINE-5'-TRIPHOSPHATE, MAGNESIUM ION | | Authors: | Shiba, T, Kawasaki, M, Takatsu, H, Nogi, T, Matsugaki, N, Igarashi, N, Suzuki, M, Kato, R, Nakayama, K, Wakatsuki, S. | | Deposit date: | 2003-05-08 | | Release date: | 2003-05-20 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.5 Å) | | Cite: | Molecular mechanism of membrane recruitment of GGA by ARF in lysosomal protein transport
Nat.Struct.Biol., 10, 2003
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1O3X
 | | Crystal structure of human GGA1 GAT domain | | Descriptor: | ADP-ribosylation factor binding protein GGA1 | | Authors: | Shiba, T, Kawasaki, M, Takatsu, H, Nogi, T, Matsugaki, N, Igarashi, N, Suzuki, M, Kato, R, Nakayama, K, Wakatsuki, S. | | Deposit date: | 2003-05-08 | | Release date: | 2003-05-20 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Molecular Mechanism of Membrane Recruitment of Gga by Arf in Lysosomal Protein Transport
Nat.Struct.Biol., 10, 2003
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3VIA
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3VTW
 | | Crystal structure of T7-tagged Optineurin LIR-fused human LC3B_2-119 | | Descriptor: | Optineurin, microtubule-associated proteins 1A/1B light chain 3B, SULFATE ION | | Authors: | Suzuki, H, Kawasaki, M, Kato, R, Wakatsuki, S. | | Deposit date: | 2012-06-08 | | Release date: | 2013-06-26 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.52 Å) | | Cite: | Structural basis for phosphorylation-triggered autophagic clearance of Salmonella
Biochem.J., 454, 2013
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3VV1
 | | Crystal Structure of Caenorhabditis elegans galectin LEC-6 | | Descriptor: | MAGNESIUM ION, Protein LEC-6, beta-D-galactopyranose-(1-4)-alpha-L-fucopyranose | | Authors: | Makyio, H, Takeuchi, T, Tamura, M, Nishiyama, K, Takahashi, H, Natsugari, H, Arata, Y, Kasai, K, Yamada, Y, Wakatsuki, S, Kato, R. | | Deposit date: | 2012-07-10 | | Release date: | 2013-05-22 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.5 Å) | | Cite: | Structural basis of preferential binding of fucose-containing saccharide by the Caenorhabditis elegans galectin LEC-6
Glycobiology, 23, 2013
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3VTU
 | | Crystal structure of human LC3B_2-119 | | Descriptor: | Microtubule-associated proteins 1A/1B light chain 3B, SULFATE ION | | Authors: | Suzuki, H, Kawasaki, M, Kato, R, Wakatsuki, S. | | Deposit date: | 2012-06-08 | | Release date: | 2013-06-26 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | Structural basis for phosphorylation-triggered autophagic clearance of Salmonella
Biochem.J., 454, 2013
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4DCN
 | | Crystal Structure Analysis of the Arfaptin2 BAR domain in Complex with ARL1 | | Descriptor: | ADP-ribosylation factor-like protein 1, Arfaptin-2, MAGNESIUM ION, ... | | Authors: | Nakamura, K, Xie, Y, Kawasaki, M, Kato, R, Wakatsuki, S. | | Deposit date: | 2012-01-18 | | Release date: | 2012-06-13 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (3.01 Å) | | Cite: | Structural basis for membrane binding specificity of the Bin/Amphiphysin/Rvs (BAR) domain of Arfaptin-2 determined by Arl1 GTPase
J.Biol.Chem., 287, 2012
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1WRD
 | | Crystal structure of Tom1 GAT domain in complex with ubiquitin | | Descriptor: | Target of Myb protein 1, Ubiquitin | | Authors: | Akutsu, M, Kawasaki, M, Katoh, Y, Shiba, T, Yamaguchi, Y, Kato, R, Kato, K, Nakayama, K, Wakatsuki, S. | | Deposit date: | 2004-10-14 | | Release date: | 2005-10-11 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (1.75 Å) | | Cite: | Structural basis for recognition of ubiquitinated cargo by Tom1-GAT domain.
Febs Lett., 579, 2005
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1WR6
 | | Crystal structure of GGA3 GAT domain in complex with ubiquitin | | Descriptor: | ADP-ribosylation factor binding protein GGA3, ubiquitin | | Authors: | Kawasaki, M, Shiba, T, Shiba, Y, Yamaguchi, Y, Matsugaki, N, Igarashi, N, Suzuki, M, Kato, R, Kato, K, Nakayama, K, Wakatsuki, S. | | Deposit date: | 2004-10-12 | | Release date: | 2005-06-28 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Molecular mechanism of ubiquitin recognition by GGA3 GAT domain.
Genes Cells, 10, 2005
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3H3S
 | | Crystal structure of the CERT START domain in complex with HPA-15 | | Descriptor: | Goodpasture antigen binding protein, N-[(1R,3R)-3-hydroxy-1-(hydroxymethyl)-3-phenylpropyl]pentadecanamide | | Authors: | Kudo, N, Wakatsuki, S, Kato, R. | | Deposit date: | 2009-04-17 | | Release date: | 2010-03-02 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.66 Å) | | Cite: | Crystal structures of the CERT START domain with inhibitors provide insights into the mechanism of ceramide transfer.
J.Mol.Biol., 396, 2010
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3H3T
 | | Crystal structure of the CERT START domain in complex with HPA-16 | | Descriptor: | Goodpasture antigen binding protein, N-[(1R,3R)-3-hydroxy-1-(hydroxymethyl)-3-phenylpropyl]hexadecanamide | | Authors: | Kudo, N, Wakatsuki, S, Kato, R. | | Deposit date: | 2009-04-17 | | Release date: | 2010-03-02 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Crystal structures of the CERT START domain with inhibitors provide insights into the mechanism of ceramide transfer.
J.Mol.Biol., 396, 2010
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3H3Q
 | | Crystal structure of the CERT START domain in complex with HPA-13 | | Descriptor: | Goodpasture antigen binding protein, N-[(1R,3R)-3-hydroxy-1-(hydroxymethyl)-3-phenylpropyl]tridecanamide | | Authors: | Kudo, N, Wakatsuki, S, Kato, R. | | Deposit date: | 2009-04-17 | | Release date: | 2010-03-02 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Crystal structures of the CERT START domain with inhibitors provide insights into the mechanism of ceramide transfer.
J.Mol.Biol., 396, 2010
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3H3R
 | | Crystal structure of the CERT START domain in complex with HPA-14 | | Descriptor: | Goodpasture antigen binding protein, N-[(1R,3R)-3-hydroxy-1-(hydroxymethyl)-3-phenylpropyl]tetradecanamide | | Authors: | Kudo, N, Wakatsuki, S, Kato, R. | | Deposit date: | 2009-04-17 | | Release date: | 2010-03-02 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.85 Å) | | Cite: | Crystal structures of the CERT START domain with inhibitors provide insights into the mechanism of ceramide transfer.
J.Mol.Biol., 396, 2010
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3F89
 | | NEMO CoZi domain | | Descriptor: | NF-kappa-B essential modulator | | Authors: | Rahighi, S, Ikeda, F, Kawasaki, M, Akutsu, M, Suzuki, N, Kato, R, Kensche, T, Uejima, T, Bloor, S, Komander, D, Randow, F, Wakatsuki, S, Dikic, I. | | Deposit date: | 2008-11-11 | | Release date: | 2009-03-24 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Specific recognition of linear ubiquitin chains by NEMO is important for NF-kappaB activation
Cell(Cambridge,Mass.), 136, 2009
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4X86
 | | Crystal structure of BAG6-Ubl4a complex | | Descriptor: | 3-[(3-CHOLAMIDOPROPYL)DIMETHYLAMMONIO]-1-PROPANESULFONATE, Large proline-rich protein BAG6, SULFATE ION, ... | | Authors: | Kuwabara, N, Kato, R. | | Deposit date: | 2014-12-10 | | Release date: | 2015-02-25 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.85 Å) | | Cite: | Structure of a BAG6 (Bcl-2-associated Athanogene 6)-Ubl4a (Ubiquitin-like Protein 4a) Complex Reveals a Novel Binding Interface That Functions in Tail-anchored Protein Biogenesis
J.Biol.Chem., 290, 2015
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5XFC
 | | Serial femtosecond X-ray structure of a stem domain of human O-mannose beta-1,2-N-acetylglucosaminyltransferase solved by Se-SAD using XFEL (refined against 13,000 patterns) | | Descriptor: | 4-nitrophenyl beta-D-mannopyranoside, Protein O-linked-mannose beta-1,2-N-acetylglucosaminyltransferase 1 | | Authors: | Kuwabara, N, Fumiaki, Y, Kato, R, Manya, H. | | Deposit date: | 2017-04-10 | | Release date: | 2017-08-30 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (1.4 Å) | | Cite: | Experimental phase determination with selenomethionine or mercury-derivatization in serial femtosecond crystallography
IUCrJ, 4, 2017
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5XFD
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2IEY
 | | Crystal Structure of mouse Rab27b bound to GDP in hexagonal space group | | Descriptor: | GUANOSINE-5'-DIPHOSPHATE, Ras-related protein Rab-27B | | Authors: | Chavas, L.M.G, Torii, S, Kamikubo, H, Kawasaki, M, Ihara, K, Kato, R, Kataoka, M, Izumi, T, Wakatsuki, S. | | Deposit date: | 2006-09-19 | | Release date: | 2007-05-01 | | Last modified: | 2012-04-11 | | Method: | X-RAY DIFFRACTION (3.18 Å) | | Cite: | Structure of the small GTPase Rab27b shows an unexpected swapped dimer
Acta Crystallogr.,Sect.D, 63, 2007
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2IF0
 | | Crystal Structure of mouse Rab27b bound to GDP in monoclinic space group | | Descriptor: | GUANOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, Ras-related protein Rab-27B | | Authors: | Chavas, L.M.G, Torii, S, Kamikubo, H, Kawasaki, M, Ihara, K, Kato, R, Kataoka, M, Izumi, T, Wakatsuki, S. | | Deposit date: | 2006-09-19 | | Release date: | 2007-05-01 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Structure of the small GTPase Rab27b shows an unexpected swapped dimer
Acta Crystallogr.,Sect.D, 63, 2007
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