6J3Y
| Structure of C2S2-type PSII-FCPII supercomplex from diatom | Descriptor: | (3S,3'S,5R,5'R,6S,6'R,8'R)-3,5'-dihydroxy-8-oxo-6',7'-didehydro-5,5',6,6',7,8-hexahydro-5,6-epoxy-beta,beta-caroten-3'-yl acetate, 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL, 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE, ... | Authors: | Nagao, R, Kato, K, Shen, J.R, Miyazaki, N, Akita, F. | Deposit date: | 2019-01-07 | Release date: | 2019-08-07 | Last modified: | 2019-11-06 | Method: | ELECTRON MICROSCOPY (3.3 Å) | Cite: | Structural basis for energy harvesting and dissipation in a diatom PSII-FCPII supercomplex. Nat.Plants, 5, 2019
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2RU6
| The pure alternative state of ubiquitin | Descriptor: | Ubiquitin | Authors: | Kitazawa, S, Kameda, T, Kumo, A, Utsumi, M, Baxter, N, Kato, K, Williamson, M.P, Kitahara, R. | Deposit date: | 2013-12-04 | Release date: | 2014-02-12 | Last modified: | 2024-05-15 | Method: | SOLUTION NMR | Cite: | Close Identity between Alternatively Folded State N2 of Ubiquitin and the Conformation of the Protein Bound to the Ubiquitin-Activating Enzyme Biochemistry, 53, 2014
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6J40
| Structure of C2S2M2-type PSII-FCPII supercomplex from diatom | Descriptor: | (3S,3'S,5R,5'R,6S,6'R,8'R)-3,5'-dihydroxy-8-oxo-6',7'-didehydro-5,5',6,6',7,8-hexahydro-5,6-epoxy-beta,beta-caroten-3'-yl acetate, 1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL, 1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE, ... | Authors: | Nagao, R, Kato, K, Shen, J.R, Miyazaki, N, Akita, F. | Deposit date: | 2019-01-07 | Release date: | 2019-08-07 | Last modified: | 2019-11-06 | Method: | ELECTRON MICROSCOPY (3.8 Å) | Cite: | Structural basis for energy harvesting and dissipation in a diatom PSII-FCPII supercomplex. Nat.Plants, 5, 2019
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1WUA
| The structure of Aplyronine A-actin complex | Descriptor: | (8R,9R,10R,11R,14S,18S,20S,24S)-24-{(1R,2S,3R,6R,7R,8R,9S,10E)-8-(ACETYLOXY)-6-[(N,N-DIMETHYLALANYL)OXY]-11-[FORMYL(MET HYL)AMINO]-2-HYDROXY-1,3,7,9-TETRAMETHYLUNDEC-10-ENYL}-10-HYDROXY-14,20-DIMETHOXY-9,11,15,18-TETRAMETHYL-2-OXOOXACYCLOTE TRACOSA-3,5,15,21-TETRAEN-8-YL N,N,O-TRIMETHYLSERINATE, ADENOSINE-5'-TRIPHOSPHATE, Actin, ... | Authors: | Hirata, K, Muraoka, S, Suenaga, K, Kuroda, T, Kato, K, Tanaka, H, Yamamoto, M, Takata, M, Yamada, K, Kigoshi, H. | Deposit date: | 2004-12-03 | Release date: | 2006-02-14 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (1.45 Å) | Cite: | Structure basis for antitumor effect of aplyronine a J.Mol.Biol., 356, 2006
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7BPF
| Structure of L-threoninol nucleic acid - RNA complex | Descriptor: | L-aTNA (3'-(*GP*CP*AP*GP*CP*AP*GP*C)-1'), RNA (5'-R(*GP*CP*UP*GP*CP*(5BU)P*GP*C)-3') | Authors: | Kamiya, Y, Satoh, T, Kodama, A, Suzuki, T, Uchiyama, S, Kato, K, Asanuma, H. | Deposit date: | 2020-03-22 | Release date: | 2020-11-25 | Last modified: | 2024-03-27 | Method: | X-RAY DIFFRACTION (1.75 Å) | Cite: | Intrastrand backbone-nucleobase interactions stabilize unwound right-handed helical structures of heteroduplexes of L-aTNA/RNA and SNA/RNA Commun Chem, 2020
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7BPG
| Structure of serinol nucleic acid - RNA complex | Descriptor: | CALCIUM ION, RNA (5'-R(*GP*CP*UP*GP*CP*(5BU)P*GP*C)-3'), SNA (S-(F7R)(F7X)(F7O)(F7R)(F7X)(F7O)(F7R)(F7U)-R) | Authors: | Kamiya, Y, Satoh, T, Kodama, A, Suzuki, T, Uchiyama, S, Kato, K, Asanuma, H. | Deposit date: | 2020-03-22 | Release date: | 2020-11-25 | Last modified: | 2024-03-27 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Intrastrand backbone-nucleobase interactions stabilize unwound right-handed helical structures of heteroduplexes of L-aTNA/RNA and SNA/RNA Commun Chem, 2020
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4WLC
| Structure of dextran glucosidase with glucose | Descriptor: | CALCIUM ION, GLYCEROL, Glucan 1,6-alpha-glucosidase, ... | Authors: | Kobayashi, M, Kato, K, Yao, M. | Deposit date: | 2014-10-07 | Release date: | 2015-08-26 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.402 Å) | Cite: | Structural insights into the catalytic reaction that is involved in the reorientation of Trp238 at the substrate-binding site in GH13 dextran glucosidase Febs Lett., 589, 2015
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4XB3
| Structure of dextran glucosidase | Descriptor: | CALCIUM ION, Glucan 1,6-alpha-glucosidase, HEXAETHYLENE GLYCOL | Authors: | Kobayashi, M, Kato, K, Yao, M. | Deposit date: | 2014-12-16 | Release date: | 2015-08-26 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.093 Å) | Cite: | Structural insights into the catalytic reaction that is involved in the reorientation of Trp238 at the substrate-binding site in GH13 dextran glucosidase Febs Lett., 589, 2015
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4YHD
| Staphylococcal alpha-hemolysin H35A mutant monomer | Descriptor: | Alpha-hemolysin, CHLORIDE ION | Authors: | Sugawara, T, Kato, K, Tanaka, Y, Yao, M. | Deposit date: | 2015-02-27 | Release date: | 2015-10-21 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.801 Å) | Cite: | Structural basis for pore-forming mechanism of staphylococcal alpha-hemolysin Toxicon, 108, 2015
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1WXS
| Solution Structure of Ufm1, a ubiquitin-fold modifier | Descriptor: | Ubiquitin-fold Modifier 1 | Authors: | Sasakawa, H, Sakata, E, Yamaguchi, Y, Komatsu, M, Tatsumi, K, Kominami, E, Tanaka, K, Kato, K. | Deposit date: | 2005-02-01 | Release date: | 2006-04-18 | Last modified: | 2022-03-02 | Method: | SOLUTION NMR | Cite: | Solution structure and dynamics of Ufm1, a ubiquitin-fold modifier 1 Biochem.Biophys.Res.Commun., 343, 2006
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2JZ4
| Putative 32 kDa myrosinase binding protein At3g16450.1 from Arabidopsis thaliana | Descriptor: | Jasmonate inducible protein isolog | Authors: | Takeda, N, Sugimori, N, Torizawa, T, Terauchi, T, Ono, A.M, Yagi, H, Yamaguchi, Y, Kato, K, Ikeya, T, Guntert, P, Aceti, D.J, Markley, J.L, Kainosho, M, Center for Eukaryotic Structural Genomics (CESG) | Deposit date: | 2007-12-28 | Release date: | 2008-02-19 | Last modified: | 2024-05-08 | Method: | SOLUTION NMR | Cite: | Structure of the putative 32 kDa myrosinase-binding protein from Arabidopsis (At3g16450.1) determined by SAIL-NMR. Febs J., 275, 2008
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5BW7
| Crystal structure of nonfucosylated Fc Y296W mutant complexed with bis-glycosylated soluble form of Fc gamma receptor IIIa | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-6)]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-(1-2)-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-(1-2)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, ... | Authors: | Isoda, Y, Yagi, H, Satoh, T, Shibata-Koyama, M, Masuda, K, Satoh, M, Kato, K, Iida, S. | Deposit date: | 2015-06-06 | Release date: | 2015-10-14 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | Importance of the Side Chain at Position 296 of Antibody Fc in Interactions with Fc gamma RIIIa and Other Fc gamma Receptors Plos One, 10, 2015
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5EGH
| Structure of ENPP6, a choline-specific glycerophosphodiester-phosphodiesterase in complex with phosphocholine | Descriptor: | 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... | Authors: | Morita, J, Kano, K, Kato, K, Takita, H, Ishitani, R, Nishimasu, H, Nureki, O, Aoki, J. | Deposit date: | 2015-10-27 | Release date: | 2016-03-09 | Last modified: | 2020-07-29 | Method: | X-RAY DIFFRACTION (1.803 Å) | Cite: | Structure and biological function of ENPP6, a choline-specific glycerophosphodiester-phosphodiesterase Sci Rep, 6, 2016
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5EGE
| Structure of ENPP6, a choline-specific glycerophosphodiester-phosphodiesterase | Descriptor: | 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... | Authors: | Morita, J, Kano, K, Kato, K, Takita, H, Ishitani, R, Nishimasu, H, Nureki, O, Aoki, J. | Deposit date: | 2015-10-27 | Release date: | 2016-03-09 | Last modified: | 2020-07-29 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Structure and biological function of ENPP6, a choline-specific glycerophosphodiester-phosphodiesterase Sci Rep, 6, 2016
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5AYE
| Crystal structure of Ruminococcus albus beta-(1,4)-mannooligosaccharide phosphorylase (RaMP2) in complexes with phosphate and beta-(1,4)-mannobiose | Descriptor: | Beta-1,4-mannooligosaccharide phosphorylase, PHOSPHATE ION, beta-D-mannopyranose-(1-4)-beta-D-mannopyranose | Authors: | Ye, Y, Saburi, W, Kato, K, Yao, M. | Deposit date: | 2015-08-13 | Release date: | 2016-03-23 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Structural insights into the difference in substrate recognition of two mannoside phosphorylases from two GH130 subfamilies. Febs Lett., 590, 2016
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5AYD
| Crystal structure of Ruminococcus albus beta-(1,4)-mannooligosaccharide phosphorylase (RaMP2) in complexes with phosphate | Descriptor: | Beta-1,4-mannooligosaccharide phosphorylase, PHOSPHATE ION | Authors: | Ye, Y, Saburi, W, Kato, K, Yao, M. | Deposit date: | 2015-08-13 | Release date: | 2016-03-23 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Structural insights into the difference in substrate recognition of two mannoside phosphorylases from two GH130 subfamilies. Febs Lett., 590, 2016
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5AY9
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5AYC
| Crystal structure of Ruminococcus albus 4-O-beta-D-mannosyl-D-glucose phosphorylase (RaMP1) in complexes with sulfate and 4-O-beta-D-mannosyl-D-glucose | Descriptor: | 4-O-beta-D-mannosyl-D-glucose phosphorylase, SULFATE ION, beta-D-mannopyranose-(1-4)-beta-D-glucopyranose | Authors: | Ye, Y, Saburi, W, Kato, K, Yao, M. | Deposit date: | 2015-08-13 | Release date: | 2016-03-23 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Structural insights into the difference in substrate recognition of two mannoside phosphorylases from two GH130 subfamilies. Febs Lett., 590, 2016
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5DSV
| Crystal structure of human proteasome alpha7 tetradecamer | Descriptor: | Proteasome subunit alpha type-3 | Authors: | Satoh, T, Thammaporn, R, Seetaha, S, Kato, K. | Deposit date: | 2015-09-17 | Release date: | 2015-12-02 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (3.75 Å) | Cite: | Disassembly of the self-assembled, double-ring structure of proteasome alpha 7 homo-tetradecamer by alpha 6 Sci Rep, 5, 2015
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5H18
| Crystal structure of catalytic domain of UGGT (UDP-glucose-bound form) from Thermomyces dupontii | Descriptor: | CALCIUM ION, GLYCEROL, UGGT, ... | Authors: | Satoh, T, Zhu, T, Toshimori, T, Kamikubo, H, Uchihashi, T, Kato, K. | Deposit date: | 2016-10-08 | Release date: | 2017-09-27 | Last modified: | 2017-11-01 | Method: | X-RAY DIFFRACTION (1.4 Å) | Cite: | Visualisation of a flexible modular structure of the ER folding-sensor enzyme UGGT. Sci Rep, 7, 2017
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8JH0
| Crystal structure of the light-driven sodium pump IaNaR | Descriptor: | RETINAL, Xanthorhodopsin | Authors: | Hashimoto, T, Kato, K, Tanaka, Y, Yao, M, Kikukawa, T. | Deposit date: | 2023-05-22 | Release date: | 2023-11-01 | Last modified: | 2023-12-06 | Method: | X-RAY DIFFRACTION (2.79 Å) | Cite: | Multistep conformational changes leading to the gate opening of light-driven sodium pump rhodopsin. J.Biol.Chem., 299, 2023
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1X60
| Solution structure of the peptidoglycan binding domain of B. subtilis cell wall lytic enzyme CwlC | Descriptor: | Sporulation-specific N-acetylmuramoyl-L-alanine amidase | Authors: | Mishima, M, Shida, T, Yabuki, K, Kato, K, Sekiguchi, J, Kojima, C. | Deposit date: | 2005-05-17 | Release date: | 2005-08-09 | Last modified: | 2022-03-02 | Method: | SOLUTION NMR | Cite: | Solution Structure of the Peptidoglycan Binding Domain of Bacillus subtilis Cell Wall Lytic Enzyme CwlC: Characterization of the Sporulation-Related Repeats by NMR(,) Biochemistry, 44, 2005
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8H3M
| Conformation 1 of SARS-CoV-2 Omicron BA.1 Variant Spike protein complexed with MO1 Fab | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, MO1 heavy chain, Spike glycoprotein | Authors: | Ishimaru, H, Nishimura, M, Sutandhio, S, Shigematsu, H, Kato, K, Hasegawa, N, Mori, Y. | Deposit date: | 2022-10-09 | Release date: | 2023-05-10 | Last modified: | 2023-08-02 | Method: | ELECTRON MICROSCOPY (2.48 Å) | Cite: | Identification and Analysis of Monoclonal Antibodies with Neutralizing Activity against Diverse SARS-CoV-2 Variants. J.Virol., 97, 2023
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8H3N
| Conformation 2 of SARS-CoV-2 Omicron BA.1 Variant Spike protein complexed with MO1 Fab | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, MO1 heavy-chain, MO1 light chain, ... | Authors: | Ishimaru, H, Nishimura, M, Sutandhio, S, Shigematsu, H, Kato, K, Hasegawa, N, Mori, Y. | Deposit date: | 2022-10-09 | Release date: | 2023-05-10 | Last modified: | 2023-08-02 | Method: | ELECTRON MICROSCOPY (2.73 Å) | Cite: | Identification and Analysis of Monoclonal Antibodies with Neutralizing Activity against Diverse SARS-CoV-2 Variants. J.Virol., 97, 2023
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1IR2
| Crystal Structure of Activated Ribulose-1,5-bisphosphate Carboxylase/oxygenase (Rubisco) from Green alga, Chlamydomonas reinhardtii Complexed with 2-Carboxyarabinitol-1,5-bisphosphate (2-CABP) | Descriptor: | 2-CARBOXYARABINITOL-1,5-DIPHOSPHATE, GLYCEROL, Large subunit of Rubisco, ... | Authors: | Mizohata, E, Matsumura, H, Okano, Y, Kumei, M, Takuma, H, Onodera, J, Kato, K, Shibata, N, Inoue, T, Yokota, A, Kai, Y. | Deposit date: | 2001-09-03 | Release date: | 2002-03-20 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (1.84 Å) | Cite: | Crystal structure of activated ribulose-1,5-bisphosphate carboxylase/oxygenase from green alga Chlamydomonas reinhardtii complexed with 2-carboxyarabinitol-1,5-bisphosphate. J.Mol.Biol., 316, 2002
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