7DOU
 
 | | Trimeric cement protein structure of Helicobacter pylori bacteriophage KHP40 | | Descriptor: | Cement protein gp16 | | Authors: | Kamiya, R, Uchiyama, J, Matsuzaki, S, Murata, K, Iwasaki, K, Miyazaki, N. | | Deposit date: | 2020-12-17 | | Release date: | 2021-10-27 | | Last modified: | 2024-06-05 | | Method: | ELECTRON MICROSCOPY (3 Å) | | Cite: | Acid-stable capsid structure of Helicobacter pylori bacteriophage KHP30 by single-particle cryoelectron microscopy.
Structure, 30, 2022
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5AWW
 | | Precise Resting State of Thermus thermophilus SecYEG | | Descriptor: | (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate, Protein translocase subunit SecE, Protein translocase subunit SecY, ... | | Authors: | Tanaka, Y, Sugano, Y, Takemoto, M, Kusakizako, T, Kumazaki, K, Ishitani, R, Nureki, O, Tsukazaki, T. | | Deposit date: | 2015-07-10 | | Release date: | 2015-11-25 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.724 Å) | | Cite: | Crystal Structures of SecYEG in Lipidic Cubic Phase Elucidate a Precise Resting and a Peptide-Bound State.
Cell Rep, 13, 2015
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7DOD
 | | Capsid structure of human sapovirus | | Descriptor: | Calicivirin | | Authors: | Miyazaki, N, Murakami, K, Oka, T, Iwasaki, K, Katayama, K, Murata, K. | | Deposit date: | 2020-12-14 | | Release date: | 2021-12-15 | | Last modified: | 2024-06-05 | | Method: | ELECTRON MICROSCOPY (2.9 Å) | | Cite: | Atomic structure of human sapovirus capsid by single particle cryo-electron microscopy
To Be Published
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1C9F
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1AYG
 | | SOLUTION STRUCTURE OF CYTOCHROME C-552, NMR, 20 STRUCTURES | | Descriptor: | CYTOCHROME C-552, HEME C | | Authors: | Hasegawa, J, Yoshida, T, Yamazaki, T, Sambongi, Y, Yu, Y, Igarashi, Y, Kodama, T, Yamazaki, K, Hakusui, H, Kyogoku, Y, Kobayashi, Y. | | Deposit date: | 1997-11-04 | | Release date: | 1998-11-25 | | Last modified: | 2022-02-16 | | Method: | SOLUTION NMR | | Cite: | Solution structure of thermostable cytochrome c-552 from Hydrogenobacter thermophilus determined by 1H-NMR spectroscopy.
Biochemistry, 37, 1998
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3GFH
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6LFF
 | | transcription factor SATB1 CUTr1 domain in complex with a phosphorothioate DNA | | Descriptor: | DNA (5'-D(*GP*(C7R)P*(PST)P*AP*AP*TP*AP*TP*AP*TP*GP*C)-3'), DNA (5'-D(*GP*CP*AP*TP*(AS)P*(PST)P*(AS)P*(PST)P*TP*AP*GP*C)-3'), DNA-binding protein SATB1 | | Authors: | Akutsu, Y, Kubota, T, Yamasaki, T, Yamasaki, K. | | Deposit date: | 2019-12-02 | | Release date: | 2020-04-01 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (1.79 Å) | | Cite: | Enhanced affinity of racemic phosphorothioate DNA with transcription factor SATB1 arising from diastereomer-specific hydrogen bonds and hydrophobic contacts.
Nucleic Acids Res., 48, 2020
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4XM0
 | | N,N'-diacetylchitobiose deacetylase (SeMet derivative) from Pyrococcus furiosus in the absence of cadmium | | Descriptor: | Uncharacterized protein, ZINC ION | | Authors: | Nakamura, T, Niiyama, M, Hashimoto, W, Ida, K, Uegaki, K. | | Deposit date: | 2015-01-14 | | Release date: | 2015-06-10 | | Last modified: | 2019-12-18 | | Method: | X-RAY DIFFRACTION (2.8 Å) | | Cite: | Multiple crystal forms of N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus.
Acta Crystallogr.,Sect.F, 71, 2015
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8WDV
 | | Photosynthetic LH1-RC complex from the purple sulfur bacterium Allochromatium vinosum purified by Ca2+-DEAE | | Descriptor: | (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE, (2S)-3-hydroxypropane-1,2-diyl dihexadecanoate, Antenna complex alpha/beta subunit, ... | | Authors: | Tani, K, Kanno, R, Harada, A, Kobayashi, A, Minamino, A, Nakamura, N, Ji, X.-C, Purba, E.R, Hall, M, Yu, L.-J, Madigan, M.T, Mizoguchi, A, Iwasaki, K, Humbel, B.M, Kimura, Y, Wang-Otomo, Z.-Y. | | Deposit date: | 2023-09-16 | | Release date: | 2024-02-21 | | Last modified: | 2024-05-08 | | Method: | ELECTRON MICROSCOPY (2.24 Å) | | Cite: | High-resolution structure and biochemical properties of the LH1-RC photocomplex from the model purple sulfur bacterium, Allochromatium vinosum.
Commun Biol, 7, 2024
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4XM2
 | | N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus in the absence of cadmium | | Descriptor: | Uncharacterized protein, ZINC ION | | Authors: | Nakamura, T, Niiyama, M, Hashimoto, W, Ida, K, Uegaki, K. | | Deposit date: | 2015-01-14 | | Release date: | 2015-06-10 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Multiple crystal forms of N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus.
Acta Crystallogr.,Sect.F, 71, 2015
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4XLZ
 | | N,N'-diacetylchitobiose deacetylase (SeMet derivative) from Pyrococcus furiosus in the presence of cadmium | | Descriptor: | 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, CADMIUM ION, CHLORIDE ION, ... | | Authors: | Nakamura, T, Niiyama, M, Hashimoto, W, Ida, K, Uegaki, K. | | Deposit date: | 2015-01-14 | | Release date: | 2015-06-10 | | Last modified: | 2023-11-15 | | Method: | X-RAY DIFFRACTION (1.51 Å) | | Cite: | Multiple crystal forms of N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus.
Acta Crystallogr.,Sect.F, 71, 2015
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4XM1
 | | N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus in the presence of cadmium | | Descriptor: | CADMIUM ION, CHLORIDE ION, GLYCEROL, ... | | Authors: | Nakamura, T, Niiyama, M, Hashimoto, W, Ida, K, Uegaki, K. | | Deposit date: | 2015-01-14 | | Release date: | 2015-06-10 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Multiple crystal forms of N,N'-diacetylchitobiose deacetylase from Pyrococcus furiosus.
Acta Crystallogr.,Sect.F, 71, 2015
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8WDU
 | | Photosynthetic LH1-RC complex from the purple sulfur bacterium Allochromatium vinosum purified by sucrose density | | Descriptor: | (1R)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PALMITOYLOXY)METHYL]ETHYL (11E)-OCTADEC-11-ENOATE, (2S)-3-hydroxypropane-1,2-diyl dihexadecanoate, Antenna complex alpha/beta subunit, ... | | Authors: | Tani, K, Kanno, R, Harada, A, Kobayashi, A, Minamino, A, Nakamura, N, Ji, X.-C, Purba, E.R, Hall, M, Yu, L.-J, Madigan, M.T, Mizoguchi, A, Iwasaki, K, Humbel, B.M, Kimura, Y, Wang-Otomo, Z.-Y. | | Deposit date: | 2023-09-16 | | Release date: | 2024-02-21 | | Last modified: | 2024-05-08 | | Method: | ELECTRON MICROSCOPY (2.24 Å) | | Cite: | High-resolution structure and biochemical properties of the LH1-RC photocomplex from the model purple sulfur bacterium, Allochromatium vinosum.
Commun Biol, 7, 2024
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6A7P
 | | Human serum albumin complexed with aripiprazole | | Descriptor: | 7-[4-[4-[2,3-bis(chloranyl)phenyl]piperazin-1-yl]butoxy]-3,4-dihydro-1H-quinolin-2-one, PHOSPHATE ION, POTASSIUM ION, ... | | Authors: | Kawai, A, Yamasaki, K, Otagiri, M. | | Deposit date: | 2018-07-03 | | Release date: | 2018-10-24 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.28 Å) | | Cite: | Analysis of the Binding of Aripiprazole to Human Serum Albumin: The Importance of a Chloro-Group in the Chemical Structure.
Acs Omega, 3, 2018
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5EGM
 | | Development of a novel tricyclic class of potent and selective FIXa inhibitors | | Descriptor: | 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID, 2-chloranyl-~{N}-[(7~{S})-2-methyl-7-phenyl-10-(1~{H}-1,2,3,4-tetrazol-5-yl)-8,9-dihydro-6~{H}-pyrido[1,2-a]indol-7-yl]-4-(1,2,4-triazol-4-yl)benzamide, Coagulation factor IX, ... | | Authors: | Meng, D, Andre, P, Bateman, T.J, Berger, R, Chen, Y, Desai, K, Dewnani, S, Ellsworth, K, Feng, D, Geissler, W.M, Guo, L, Hruza, A, Jian, T, Li, H, Parker, D.L, Reichert, P, Sherer, E.C, Smith, C.J, Sonatore, L.M, Tschirret-Guth, R, Wu, J, Xu, J, Zhang, T, Campeau, L, Orr, R, Poirier, M, McCabe-Dunn, j, Araki, K, Nishimura, T, Sakurada, I, Hirabayashi, T, Wood, H.B. | | Deposit date: | 2015-10-27 | | Release date: | 2015-11-18 | | Last modified: | 2023-09-27 | | Method: | X-RAY DIFFRACTION (1.841 Å) | | Cite: | Development of a novel tricyclic class of potent and selective FIXa inhibitors.
Bioorg.Med.Chem.Lett., 25, 2015
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5CH4
 | | Peptide-Bound State of Thermus thermophilus SecYEG | | Descriptor: | Protein translocase subunit SecE, Protein translocase subunit SecY, Putative preprotein translocase, ... | | Authors: | Tanaka, Y, Sugano, Y, Takemoto, M, Kusakizako, T, Kumazaki, K, Ishitani, R, Nureki, O, Tsukazaki, T. | | Deposit date: | 2015-07-10 | | Release date: | 2015-11-25 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.64 Å) | | Cite: | Crystal Structures of SecYEG in Lipidic Cubic Phase Elucidate a Precise Resting and a Peptide-Bound State.
Cell Rep, 13, 2015
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1A05
 | | CRYSTAL STRUCTURE OF THE COMPLEX OF 3-ISOPROPYLMALATE DEHYDROGENASE FROM THIOBACILLUS FERROOXIDANS WITH 3-ISOPROPYLMALATE | | Descriptor: | 3-ISOPROPYLMALATE DEHYDROGENASE, 3-ISOPROPYLMALIC ACID, MAGNESIUM ION | | Authors: | Imada, K, Inagaki, K, Matsunami, H, Kawaguchi, H, Tanaka, H, Tanaka, N, Namba, K. | | Deposit date: | 1997-12-09 | | Release date: | 1998-06-17 | | Last modified: | 2024-05-22 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Structure of 3-isopropylmalate dehydrogenase in complex with 3-isopropylmalate at 2.0 A resolution: the role of Glu88 in the unique substrate-recognition mechanism.
Structure, 6, 1998
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1UKJ
 | | Detailed structure of L-Methionine-Lyase from Pseudomonas putida | | Descriptor: | Methionine gamma-lyase, SULFATE ION | | Authors: | Misaki, S, Takimoto, A, Takakura, T, Yoshioka, T, Yamashita, M, Tamura, T, Tanaka, H, Inagaki, K. | | Deposit date: | 2003-08-24 | | Release date: | 2004-10-19 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Detailed structure of L-Methionine -Lyase from Pseudomonas putida
To be Published
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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: | 2020-07-29 | | 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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6IU5
 | | Crystal structure of cytoplasmic metal binding domain with zinc ions | | Descriptor: | CHLORIDE ION, VIT1, ZINC ION | | Authors: | Kato, T, Nishizawa, T, Yamashita, K, Kumazaki, K, Ishitani, R, Nureki, O. | | Deposit date: | 2018-11-27 | | Release date: | 2019-02-06 | | Last modified: | 2024-03-27 | | Method: | X-RAY DIFFRACTION (2.25 Å) | | Cite: | Crystal structure of plant vacuolar iron transporter VIT1.
Nat Plants, 5, 2019
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6IU8
 | | Crystal structure of cytoplasmic metal binding domain with cobalt ions | | Descriptor: | COBALT (II) ION, VIT1, ZINC ION | | Authors: | Kato, T, Nishizawa, T, Yamashita, K, Kumazaki, K, Ishitani, R, Nureki, O. | | Deposit date: | 2018-11-27 | | Release date: | 2019-02-06 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.7 Å) | | Cite: | Crystal structure of plant vacuolar iron transporter VIT1.
Nat Plants, 5, 2019
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6IU6
 | | Crystal structure of cytoplasmic metal binding domain with nickel ions | | Descriptor: | NICKEL (II) ION, VIT1, ZINC ION | | Authors: | Kato, T, Nishizawa, T, Yamashita, K, Kumazaki, K, Ishitani, R, Nureki, O. | | Deposit date: | 2018-11-27 | | Release date: | 2019-02-06 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.9 Å) | | Cite: | Crystal structure of plant vacuolar iron transporter VIT1.
Nat Plants, 5, 2019
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6IU9
 | | Crystal structure of cytoplasmic metal binding domain with iron ions | | Descriptor: | FE (II) ION, VIT1, ZINC ION | | Authors: | Kato, T, Nishizawa, T, Yamashita, K, Kumazaki, K, Ishitani, R, Nureki, O. | | Deposit date: | 2018-11-27 | | Release date: | 2019-02-06 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Crystal structure of plant vacuolar iron transporter VIT1.
Nat Plants, 5, 2019
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1RCH
 | | SOLUTION NMR STRUCTURE OF RIBONUCLEASE HI FROM ESCHERICHIA COLI, 8 STRUCTURES | | Descriptor: | RIBONUCLEASE HI | | Authors: | Yamazaki, T, Fujiwara, M, Kato, T, Yamasaki, K, Nagayama, K. | | Deposit date: | 1995-06-23 | | Release date: | 1997-02-12 | | Last modified: | 2024-05-22 | | Method: | SOLUTION NMR | | Cite: | Solution Structure of Ribonuclease Hi from Escherichia Coli
Biol.Pharm.Bull., 23, 2000
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1RRB
 | | THE RAS-BINDING DOMAIN OF RAF-1 FROM RAT, NMR, 1 STRUCTURE | | Descriptor: | RAF PROTO-ONCOGENE SERINE/THREONINE-PROTEIN KINASE | | Authors: | Terada, T, Ito, Y, Shirouzu, M, Tateno, M, Hashimoto, K, Kigawa, T, Ebisuzaki, T, Takio, K, Shibata, T, Yokoyama, S, Smith, B.O, Laue, E.D, Cooper, J.A, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 1998-03-26 | | Release date: | 1999-03-30 | | Last modified: | 2024-05-22 | | Method: | SOLUTION NMR | | Cite: | Nuclear magnetic resonance and molecular dynamics studies on the interactions of the Ras-binding domain of Raf-1 with wild-type and mutant Ras proteins.
J.Mol.Biol., 286, 1999
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