8H3M
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![BU of 8h3m by Molmil](/molmil-images/mine/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
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![BU of 8h3n by Molmil](/molmil-images/mine/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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2RSU
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![BU of 2rsu by Molmil](/molmil-images/mine/2rsu) | Alternative structure of Ubiquitin | Descriptor: | Ubiquitin | Authors: | Kitazawa, S, Kameda, T, Yagi-Utsumi, M, Kato, K, Kitahara, R. | Deposit date: | 2012-06-15 | Release date: | 2013-03-27 | Last modified: | 2024-05-15 | Method: | SOLUTION NMR | Cite: | Solution Structure of the Q41N Variant of Ubiquitin as a Model for the Alternatively Folded N2 State of Ubiquitin Biochemistry, 52, 2013
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8H25
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![BU of 8h25 by Molmil](/molmil-images/mine/8h25) | Lacticaseibacillus casei GH35 beta-galactosidase LBCZ_0230 | Descriptor: | 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, Beta-galactosidase, DI(HYDROXYETHYL)ETHER, ... | Authors: | Saburi, W, Ota, T, Kato, K, Tagami, T, Yamashita, K, Yao, M, Mori, H. | Deposit date: | 2022-10-04 | Release date: | 2023-08-16 | Last modified: | 2024-05-08 | Method: | X-RAY DIFFRACTION (2.295 Å) | Cite: | Function and Structure of Lacticaseibacillus casei GH35 beta-Galactosidase LBCZ_0230 with High Hydrolytic Activity to Lacto- N -biose I and Galacto- N -biose. J Appl Glycosci (1999), 70, 2023
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4YD9
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![BU of 4yd9 by Molmil](/molmil-images/mine/4yd9) | Crystal structure of squid hemocyanin | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CU2-O2 CLUSTER, alpha-D-mannopyranose-(1-3)-[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, ... | Authors: | Matsuno, A, Gai, Z, Kato, K, Tanaka, Y, Yao, M. | Deposit date: | 2015-02-21 | Release date: | 2015-10-14 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | Crystal Structure of the 3.8-MDa Respiratory Supermolecule Hemocyanin at 3.0 angstrom Resolution Structure, 23, 2015
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6S24
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![BU of 6s24 by Molmil](/molmil-images/mine/6s24) | Crystal structure of the TgGalNAc-T3 in complex with UDP, manganese and the peptide 3 | Descriptor: | 2-acetamido-2-deoxy-beta-D-galactopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose, ALA-THR-GLY-ALA-GLY-ALA-GLY-ALA-GLY-THR-THR-PRO-GLY-PRO, ... | Authors: | de las Rivas, M, Daniel, E.J.P, Narimatsu, Y, Companon, I, Kato, K, Hermosilla, P, Thureau, A, Ceballos-Laita, L, Coelho, H, Bernado, P, Marcelo, F, Hansen, L, Lostao, A, Corzana, F, Clausen, H, Gerken, T.A, Hurtado-Guerrero, R. | Deposit date: | 2019-06-20 | Release date: | 2019-12-25 | Last modified: | 2024-01-24 | Method: | X-RAY DIFFRACTION (2.12 Å) | Cite: | Molecular basis for fibroblast growth factor 23 O-glycosylation by GalNAc-T3. Nat.Chem.Biol., 16, 2020
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6S22
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![BU of 6s22 by Molmil](/molmil-images/mine/6s22) | Crystal structure of the TgGalNAc-T3 in complex with UDP, manganese and FGF23c | Descriptor: | 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-galactopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose, ... | Authors: | de las Rivas, M, Daniel, E.J.P, Narimatsu, Y, Companon, I, Kato, K, Hermosilla, P, Thureau, A, Ceballos-Laita, L, Coelho, H, Bernado, P, Marcelo, F, Hansen, L, Lostao, A, Corzana, F, Clausen, H, Gerken, T.A, Hurtado-Guerrero, R. | Deposit date: | 2019-06-20 | Release date: | 2019-12-25 | Last modified: | 2024-01-24 | Method: | X-RAY DIFFRACTION (1.96 Å) | Cite: | Molecular basis for fibroblast growth factor 23 O-glycosylation by GalNAc-T3. Nat.Chem.Biol., 16, 2020
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2RU6
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![BU of 2ru6 by Molmil](/molmil-images/mine/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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8JH0
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![BU of 8jh0 by Molmil](/molmil-images/mine/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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4YGB
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![BU of 4ygb by Molmil](/molmil-images/mine/4ygb) | Crystal structure of ERGIC-53/MCFD2, monoclinic calcium-free form | Descriptor: | CALCIUM ION, GLYCEROL, Multiple coagulation factor deficiency protein 2, ... | Authors: | Satoh, T, Nishio, M, Yagi-Utsumi, M, Suzuki, K, Anzai, T, Mizushima, T, Kamiya, Y, Kato, K. | Deposit date: | 2015-02-26 | Release date: | 2016-04-06 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Crystallographic snapshots of the EF-hand protein MCFD2 complexed with the intracellular lectin ERGIC-53 involved in glycoprotein transport. Acta Crystallogr.,Sect.F, 76, 2020
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4YGD
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![BU of 4ygd by Molmil](/molmil-images/mine/4ygd) | Crystal structure of ERGIC-53/MCFD2, monoclinic calcium-bound form 2 | Descriptor: | CALCIUM ION, CHLORIDE ION, Multiple coagulation factor deficiency protein 2, ... | Authors: | Satoh, T, Nishio, M, Yagi-Utsumi, M, Suzuki, K, Anzai, T, Mizushima, T, Kamiya, Y, Kato, K. | Deposit date: | 2015-02-26 | Release date: | 2016-04-06 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.51 Å) | Cite: | Crystallographic snapshots of the EF-hand protein MCFD2 complexed with the intracellular lectin ERGIC-53 involved in glycoprotein transport. Acta Crystallogr.,Sect.F, 76, 2020
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4YGC
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![BU of 4ygc by Molmil](/molmil-images/mine/4ygc) | Crystal structure of ERGIC-53/MCFD2, monoclinic calcium-bound form 1 | Descriptor: | CALCIUM ION, CHLORIDE ION, Multiple coagulation factor deficiency protein 2, ... | Authors: | Satoh, T, Nishio, M, Yagi-Utsumi, M, Suzuki, K, Anzai, T, Mizushima, T, Kamiya, Y, Kato, K. | Deposit date: | 2015-02-26 | Release date: | 2016-04-06 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Crystallographic snapshots of the EF-hand protein MCFD2 complexed with the intracellular lectin ERGIC-53 involved in glycoprotein transport. Acta Crystallogr.,Sect.F, 76, 2020
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4YGE
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![BU of 4yge by Molmil](/molmil-images/mine/4yge) | Crystal structure of ERGIC-53/MCFD2, trigonal calcium-bound form 2 | Descriptor: | CALCIUM ION, CHLORIDE ION, Multiple coagulation factor deficiency protein 2, ... | Authors: | Satoh, T, Nishio, M, Yagi-Utsumi, M, Suzuki, K, Anzai, T, Mizushima, T, Kamiya, Y, Kato, K. | Deposit date: | 2015-02-26 | Release date: | 2016-04-06 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (3.05 Å) | Cite: | Crystallographic snapshots of the EF-hand protein MCFD2 complexed with the intracellular lectin ERGIC-53 involved in glycoprotein transport. Acta Crystallogr.,Sect.F, 76, 2020
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4XD9
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![BU of 4xd9 by Molmil](/molmil-images/mine/4xd9) | Structure of Rpf2-Rrs1 complex involved in ribosome biogenesis | Descriptor: | Ribosome biogenesis protein (Rrs1), putative (AFU_orthologue AFUA_7G04430), Ribosome biogenesis protein, ... | Authors: | Asano, N, Kato, K, Yao, M. | Deposit date: | 2014-12-19 | Release date: | 2015-06-10 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.35 Å) | Cite: | Structural and functional analysis of the Rpf2-Rrs1 complex in ribosome biogenesis. Nucleic Acids Res., 43, 2015
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4WJ4
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![BU of 4wj4 by Molmil](/molmil-images/mine/4wj4) | Crystal structure of non-discriminating aspartyl-tRNA synthetase from Pseudomonas aeruginosa complexed with tRNA(Asn) and aspartic acid | Descriptor: | 76mer-tRNA, ASPARTIC ACID, Aspartate--tRNA(Asp/Asn) ligase | Authors: | Suzuki, T, Nakamura, A, Kato, K, Tanaka, I, Yao, M. | Deposit date: | 2014-09-29 | Release date: | 2014-12-31 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (3.294 Å) | Cite: | Structure of the Pseudomonas aeruginosa transamidosome reveals unique aspects of bacterial tRNA-dependent asparagine biosynthesis Proc.Natl.Acad.Sci.USA, 112, 2015
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1UMI
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![BU of 1umi by Molmil](/molmil-images/mine/1umi) | Structural basis of sugar-recognizing ubiquitin ligase | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose, F-box only protein 2 | Authors: | Mizushima, T, Hirao, T, Yoshida, Y, Lee, S.J, Chiba, T, Iwai, K, Yamaguchi, Y, Kato, K, Tsukihara, T, Tanaka, K. | Deposit date: | 2003-10-01 | Release date: | 2004-04-06 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Structural basis of sugar-recognizing ubiquitin ligase. Nat.Struct.Mol.Biol., 11, 2004
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1UMH
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![BU of 1umh by Molmil](/molmil-images/mine/1umh) | Structural basis of sugar-recognizing ubiquitin ligase | Descriptor: | F-box only protein 2, NICKEL (II) ION | Authors: | Mizushima, T, Hirao, T, Yoshida, Y, Lee, S.J, Chiba, T, Iwai, K, Yamaguchi, Y, Kato, K, Tsukihara, T, Tanaka, K, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | Deposit date: | 2003-10-01 | Release date: | 2004-04-06 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Structural basis of sugar-recognizing ubiquitin ligase NAT.STRUCT.MOL.BIOL., 11, 2004
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5BW7
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![BU of 5bw7 by Molmil](/molmil-images/mine/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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5AYE
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![BU of 5aye by Molmil](/molmil-images/mine/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
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![BU of 5ayd by Molmil](/molmil-images/mine/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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1WUA
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![BU of 1wua by Molmil](/molmil-images/mine/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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7BPG
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![BU of 7bpg by Molmil](/molmil-images/mine/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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7BPF
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![BU of 7bpf by Molmil](/molmil-images/mine/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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5AY9
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![BU of 5ay9 by Molmil](/molmil-images/mine/5ay9) | |
5AYC
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![BU of 5ayc by Molmil](/molmil-images/mine/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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