7YPP
| Structural basis of a superoxide dismutase from a tardigrade, Ramazzottius varieornatus strain YOKOZUNA-1. | Descriptor: | CALCIUM ION, COPPER (II) ION, Superoxide dismutase [Cu-Zn], ... | Authors: | Sim, K.-S, Fukuda, Y, Inoue, T. | Deposit date: | 2022-08-04 | Release date: | 2023-07-26 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Structure of a superoxide dismutase from a tardigrade: Ramazzottius varieornatus strain YOKOZUNA-1. Acta Crystallogr.,Sect.F, 79, 2023
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7YPR
| Structural basis of a superoxide dismutase from a tardigrade, Ramazzottius varieornatus strain YOKOZUNA-1. | Descriptor: | COPPER (II) ION, POTASSIUM ION, Superoxide dismutase [Cu-Zn], ... | Authors: | Sim, K.-S, Fukuda, Y, Inoue, T. | Deposit date: | 2022-08-04 | Release date: | 2023-12-06 | Method: | X-RAY DIFFRACTION (2.101 Å) | Cite: | Structure of a superoxide dismutase from a tardigrade: Ramazzottius varieornatus strain YOKOZUNA-1. Acta Crystallogr.,Sect.F, 79, 2023
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5F7A
| Nitrite complex structure of copper nitrite reductase from Alcaligenes faecalis determined at 293 K | Descriptor: | COPPER (II) ION, Copper-containing nitrite reductase, NITRITE ION | Authors: | Fukuda, Y, Tse, K.M, Nakane, T, Nakatsu, T, Suzuki, M, Sugahara, M, Inoue, S, Masuda, T, Yumoto, F, Matsugaki, N, Nango, E, Tono, K, Joti, Y, Kameshima, T, Song, C, Hatsui, T, Yabashi, M, Nureki, O, Murphy, M.E.P, Inoue, T, Iwata, S, Mizohata, E. | Deposit date: | 2015-12-07 | Release date: | 2016-03-16 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.54 Å) | Cite: | Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography Proc.Natl.Acad.Sci.USA, 113, 2016
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5F7B
| Resting state structure of CuNiR form Alcaligenes faecalis determined at 293 K | Descriptor: | COPPER (II) ION, Copper-containing nitrite reductase | Authors: | Fukuda, Y, Tse, K.M, Nakane, T, Nakatsu, T, Suzuki, M, Sugahara, M, Inoue, S, Masuda, T, Yumoto, F, Matsugaki, N, Nango, E, Tono, K, Joti, Y, Kameshima, T, Song, C, Hatsui, T, Yabashi, M, Nureki, O, Murphy, M.E.P, Inoue, T, Iwata, S, Mizohata, E. | Deposit date: | 2015-12-07 | Release date: | 2016-03-16 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.56 Å) | Cite: | Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography Proc.Natl.Acad.Sci.USA, 113, 2016
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1QTR
| CRYSTAL STRUCTURE ANALYSIS OF THE PROLYL AMINOPEPTIDASE FROM SERRATIA MARCESCENS | Descriptor: | PROLYL AMINOPEPTIDASE | Authors: | Yoshimoto, T, Kabashima, T, Uchikawa, K, Inoue, T, Tanaka, N. | Deposit date: | 1999-06-28 | Release date: | 1999-07-07 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (2.32 Å) | Cite: | Crystal structure of prolyl aminopeptidase from Serratia marcescens. J.Biochem.(Tokyo), 126, 1999
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7BXX
| Tetanus neurotoxin translocation domain -C467S | Descriptor: | Tetanus toxin | Authors: | Zhang, C.M, Imoto, Y, Fukuda, Y, Yamashita, E, Inoue, T. | Deposit date: | 2020-04-21 | Release date: | 2021-02-17 | Last modified: | 2023-11-29 | Method: | SOLUTION SCATTERING (2.34 Å), X-RAY DIFFRACTION | Cite: | Structural flexibility of the tetanus neurotoxin revealed by crystallographic and solution scattering analyses. J Struct Biol X, 5, 2021
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7BY4
| Tetanus neurotoxin receptor binding domain | Descriptor: | 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, GLYCEROL, SODIUM ION, ... | Authors: | Zhang, C.M, Imoto, Y, Inoue, T. | Deposit date: | 2020-04-21 | Release date: | 2021-02-17 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | Structural flexibility of the tetanus neurotoxin revealed by crystallographic and solution scattering analyses. J Struct Biol X, 5, 2021
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7BY5
| Tetanus neurotoxin mutant-(H233A/E234Q/H237A/Y375F) | Descriptor: | 1,2-ETHANEDIOL, 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, CHLORIDE ION, ... | Authors: | Zhang, C.M, Imoto, Y, Fukuda, Y, Yamashita, E, Inoue, T. | Deposit date: | 2020-04-21 | Release date: | 2021-02-17 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.27 Å) | Cite: | Structural flexibility of the tetanus neurotoxin revealed by crystallographic and solution scattering analyses. J Struct Biol X, 5, 2021
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1FIY
| THREE-DIMENSIONAL STRUCTURE OF PHOSPHOENOLPYRUVATE CARBOXYLASE FROM ESCHERICHIA COLI AT 2.8 A RESOLUTION | Descriptor: | ASPARTIC ACID, PHOSPHOENOLPYRUVATE CARBOXYLASE | Authors: | Kai, Y, Matsumura, H, Inoue, T, Terada, K, Nagara, Y, Yoshinaga, T, Kihara, A, Izui, K. | Deposit date: | 1998-05-02 | Release date: | 1999-02-09 | Last modified: | 2024-02-07 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Three-dimensional structure of phosphoenolpyruvate carboxylase: a proposed mechanism for allosteric inhibition. Proc.Natl.Acad.Sci.USA, 96, 1999
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1QB4
| CRYSTAL STRUCTURE OF MN(2+)-BOUND PHOSPHOENOLPYRUVATE CARBOXYLASE | Descriptor: | ASPARTIC ACID, MANGANESE (II) ION, PHOSPHOENOLPYRUVATE CARBOXYLASE | Authors: | Matsumura, H, Terada, M, Shirakata, S, Inoue, T, Yoshinaga, T, Izui, K, Kai, Y. | Deposit date: | 1999-04-30 | Release date: | 2002-05-01 | Last modified: | 2024-02-14 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Plausible phosphoenolpyruvate binding site revealed by 2.6 A structure of Mn2+-bound phosphoenolpyruvate carboxylase from Escherichia coli FEBS Lett., 458, 1999
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7BWH
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6A78
| Crystal structure of the fifth immunoglobulin domain (Ig5) of human Robo1 in complex with the scFv fragment of murine monoclonal antibody B5209B | Descriptor: | Heavy chain and linker region of the anti-human Robo1 antibody B5209B scFv, Light chain region of the anti-human Robo1 antibody B5209B scFv, Roundabout homolog 1, ... | Authors: | Mizohata, E, Nakayama, T, Kado, Y, Inoue, T. | Deposit date: | 2018-07-02 | Release date: | 2019-01-30 | Last modified: | 2019-03-20 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Affinity Improvement of a Cancer-Targeted Antibody through Alanine-Induced Adjustment of Antigen-Antibody Interface. Structure, 27, 2019
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1RKR
| CRYSTAL STRUCTURE OF AZURIN-I FROM ALCALIGENES XYLOSOXIDANS NCIMB 11015 | Descriptor: | AZURIN-I, COPPER (II) ION | Authors: | Li, C, Inoue, T, Gotowda, M, Suzuki, S, Yamaguchi, K, Kataoka, K, Kai, Y. | Deposit date: | 1997-05-17 | Release date: | 1998-05-20 | Last modified: | 2024-04-03 | Method: | X-RAY DIFFRACTION (2.45 Å) | Cite: | Structure of azurin I from the denitrifying bacterium Alcaligenes xylosoxidans NCIMB 11015 at 2.45 A resolution. Acta Crystallogr.,Sect.D, 54, 1998
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5D4I
| Intact nitrite complex of a copper nitrite reductase determined by serial femtosecond crystallography | Descriptor: | COPPER (II) ION, Copper-containing nitrite reductase, NITRITE ION | Authors: | Fukuda, Y, Tse, K.M, Nakane, T, Nakatsu, T, Suzuki, M, Sugahara, M, Inoue, S, Masuda, T, Yumoto, F, Matsugaki, N, Nango, E, Tono, K, Joti, Y, Kameshima, T, Song, C, Hatsui, T, Yabashi, M, Nureki, O, Murphy, M.E.P, Inoue, T, Iwata, S, Mizohata, E. | Deposit date: | 2015-08-07 | Release date: | 2016-03-09 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography Proc.Natl.Acad.Sci.USA, 113, 2016
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5D4H
| High-resolution nitrite complex of a copper nitrite reductase determined by synchrotron radiation crystallography | Descriptor: | ACETIC ACID, COPPER (II) ION, Copper-containing nitrite reductase, ... | Authors: | Fukuda, Y, Tse, K.M, Nakane, T, Nakatsu, T, Suzuki, M, Sugahara, M, Inoue, S, Masuda, T, Yumoto, F, Matsugaki, N, Nango, E, Tono, K, Joti, Y, Kameshima, T, Song, C, Hatsui, T, Yabashi, M, Nureki, O, Murphy, M.E.P, Inoue, T, Iwata, S, Mizohata, E. | Deposit date: | 2015-08-07 | Release date: | 2016-03-09 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.3 Å) | Cite: | Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography Proc.Natl.Acad.Sci.USA, 113, 2016
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5D4J
| Chloride-bound form of a copper nitrite reductase from Alcaligenes faecals | Descriptor: | ACETIC ACID, CHLORIDE ION, COPPER (II) ION, ... | Authors: | Fukuda, Y, Tse, K.M, Nakane, T, Nakatsu, T, Suzuki, M, Sugahara, M, Inoue, S, Yumoto, F, Matsugaki, N, Nango, E, Tono, K, Joti, Y, Kameshima, T, Song, C, Yabashi, M, Nureki, O, Murphy, M.E.P, Inoue, T, Iwata, S, Mizohata, E. | Deposit date: | 2015-08-07 | Release date: | 2016-03-09 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography Proc.Natl.Acad.Sci.USA, 113, 2016
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8GZ5
| Crystal structure of neutralizing VHH P17 in complex with SARS-CoV-2 Alpha variant spike receptor-binding domain | Descriptor: | 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, Nanobody P17, ... | Authors: | Yamaguchi, K, Anzai, I, Maeda, R, Moriguchi, M, Watanabe, T, Imura, A, Takaori-Kondo, A, Inoue, T. | Deposit date: | 2022-09-25 | Release date: | 2022-12-07 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Structural insights into the rational design of a nanobody that binds with high affinity to the SARS-CoV-2 spike variant. J.Biochem., 173, 2023
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5E8D
| Crystal structure of human epiregulin in complex with the Fab fragment of murine monoclonal antibody 9E5 | Descriptor: | CHLORIDE ION, GLYCEROL, Proepiregulin, ... | Authors: | Kado, Y, Mizohata, E, Nagatoishi, S, Iijima, M, Shinoda, K, Miyafusa, T, Nakayama, T, Yoshizumi, T, Sugiyama, A, Kawamura, T, Lee, Y.H, Matsumura, H, Doi, H, Fujitani, H, Kodama, T, Shibasaki, Y, Tsumoto, K, Inoue, T. | Deposit date: | 2015-10-14 | Release date: | 2015-12-09 | Last modified: | 2020-02-19 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Epiregulin Recognition Mechanisms by Anti-epiregulin Antibody 9E5: STRUCTURAL, FUNCTIONAL, AND MOLECULAR DYNAMICS SIMULATION ANALYSES J.Biol.Chem., 291, 2016
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8GZ6
| Crystal structure of neutralizing VHH P17 in complex with SARS-CoV-2 Alpha variant spike receptor-binding domain | Descriptor: | 1,2-ETHANEDIOL, CHLORIDE ION, Nanobody P17 | Authors: | Yamaguchi, K, Anzai, I, Maeda, R, Moriguchi, M, Watanabe, T, Imura, A, Takaori-Kondo, A, Inoue, T. | Deposit date: | 2022-09-25 | Release date: | 2022-12-07 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.35 Å) | Cite: | Structural insights into the rational design of a nanobody that binds with high affinity to the SARS-CoV-2 spike variant. J.Biochem., 173, 2023
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1BWV
| Activated Ribulose 1,5-Bisphosphate Carboxylase/Oxygenase (RUBISCO) Complexed with the Reaction Intermediate Analogue 2-Carboxyarabinitol 1,5-Bisphosphate | Descriptor: | 2-CARBOXYARABINITOL-1,5-DIPHOSPHATE, MAGNESIUM ION, PROTEIN (RIBULOSE BISPHOSPHATE CARBOXYLASE) | Authors: | Sugawara, H, Yamamoto, H, Shibata, N, Inoue, T, Miyake, C, Yokota, A, Kai, Y. | Deposit date: | 1998-09-29 | Release date: | 1999-09-27 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Crystal structure of carboxylase reaction-oriented ribulose 1, 5-bisphosphate carboxylase/oxygenase from a thermophilic red alga, Galdieria partita. J.Biol.Chem., 274, 1999
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4YSC
| Completely oxidized structure of copper nitrite reductase from Alcaligenes faecalis | Descriptor: | CHLORIDE ION, COPPER (II) ION, Copper-containing nitrite reductase | Authors: | Fukuda, Y, Tse, K.M, Suzuki, M, Diederichs, K, Hirata, K, Nakane, T, Sugahara, M, Nango, E, Tono, K, Joti, Y, Kameshima, T, Song, C, Hatsui, T, Yabashi, M, Nureki, O, Matsumura, H, Inoue, T, Iwata, S, Mizohata, E. | Deposit date: | 2015-03-17 | Release date: | 2016-03-09 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (2.03 Å) | Cite: | Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography Proc.Natl.Acad.Sci.USA, 113, 2016
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4YSE
| High resolution synchrotron structure of copper nitrite reductase from Alcaligenes faecalis | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, ACETIC ACID, COPPER (II) ION, ... | Authors: | Fukuda, Y, Tse, K.M, Suzuki, M, Diederichs, K, Hirata, K, Nakane, T, Sugahara, M, Nango, E, Tono, K, Joti, Y, Kameshima, T, Song, C, Hatsui, T, Yabashi, M, Nureki, O, Matsumura, H, Inoue, T, Iwata, S, Mizohata, E. | Deposit date: | 2015-03-17 | Release date: | 2016-03-09 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.2 Å) | Cite: | Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography Proc.Natl.Acad.Sci.USA, 113, 2016
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8IBN
| Cryo-EM structure of KpFtsZ single filament | Descriptor: | Cell division protein FtsZ, PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER, POTASSIUM ION | Authors: | Fujita, J, Amesaka, H, Yoshizawa, T, Kuroda, N, Kamimura, N, Hibino, K, Konishi, T, Kato, Y, Hara, M, Inoue, T, Namba, K, Tanaka, S, Matsumura, H. | Deposit date: | 2023-02-10 | Release date: | 2023-08-02 | Last modified: | 2024-05-08 | Method: | ELECTRON MICROSCOPY (3.03 Å) | Cite: | Structures of a FtsZ single protofilament and a double-helical tube in complex with a monobody. Nat Commun, 14, 2023
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8H1O
| Cryo-EM structure of KpFtsZ-monobody double helical tube | Descriptor: | Cell division protein FtsZ, GUANOSINE-5'-DIPHOSPHATE, Mb(Ec/KpFtsZ_S1) | Authors: | Fujita, J, Amesaka, H, Yoshizawa, T, Kuroda, N, Kamimura, N, Hara, M, Inoue, T, Namba, K, Tanaka, S, Matsumura, H. | Deposit date: | 2022-10-03 | Release date: | 2023-08-02 | Method: | ELECTRON MICROSCOPY (2.67 Å) | Cite: | Structures of a FtsZ single protofilament and a double-helical tube in complex with a monobody. Nat Commun, 14, 2023
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8JWD
| Histidine kinase QseE sensor domain of Escherichia coli O157:H7 | Descriptor: | 1,2-ETHANEDIOL, histidine kinase | Authors: | Matsumoto, K, Fukuda, Y, Inoue, T. | Deposit date: | 2023-06-28 | Release date: | 2023-11-15 | Method: | X-RAY DIFFRACTION (1.33 Å) | Cite: | Crystal structures of QseE and QseG: elements of a three-component system from Escherichia coli. Acta Crystallogr.,Sect.F, 79, 2023
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