2ZO0
| mouse NP95 SRA domain DNA specific complex 1 | Descriptor: | DNA (5'-D(*DGP*DTP*DCP*DAP*DGP*(5CM)P*DGP*DCP*DAP*DAP*DTP*DGP*DG)-3'), DNA (5'-D(*DTP*DCP*DCP*DAP*DTP*DGP*DCP*DGP*DCP*DTP*DGP*DAP*DC)-3'), E3 ubiquitin-protein ligase UHRF1 | Authors: | Hashimoto, H, Horton, J.R, Cheng, X. | Deposit date: | 2008-05-05 | Release date: | 2008-09-09 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (2.19 Å) | Cite: | The SRA domain of UHRF1 flips 5-methylcytosine out of the DNA helix Nature, 455, 2008
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2ZO1
| Mouse NP95 SRA domain DNA specific complex 2 | Descriptor: | 1,2-ETHANEDIOL, DNA (5'-D(*DGP*DTP*DCP*DAP*DGP*(5CM)P*DGP*DCP*DAP*DAP*DTP*DGP*DG)-3'), DNA (5'-D(*DTP*DCP*DCP*DAP*DTP*DGP*DCP*DGP*DCP*DTP*DGP*DAP*DC)-3'), ... | Authors: | Hashimoto, H, Horton, J.R, Cheng, X. | Deposit date: | 2008-05-05 | Release date: | 2008-09-09 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (1.96 Å) | Cite: | The SRA domain of UHRF1 flips 5-methylcytosine out of the DNA helix Nature, 455, 2008
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3ALR
| Crystal structure of Nanos | Descriptor: | Nanos protein, ZINC ION | Authors: | Hashimoto, H, Hara, K, Hishiki, A, Kawaguchi, S, Shichijo, N, Nakamura, K, Unzai, S, Tamaru, Y, Shimizu, T, Sato, M. | Deposit date: | 2010-08-06 | Release date: | 2011-02-02 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Crystal structure of zinc-finger domain of Nanos and its functional implications Embo Rep., 11, 2010
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2ZO2
| Mouse NP95 SRA domain non-specific DNA complex | Descriptor: | DNA (5'-D(*DAP*DAP*DCP*DTP*DGP*DCP*DGP*DCP*DAP*DGP*DTP*DT)-3'), E3 ubiquitin-protein ligase UHRF1, PHOSPHATE ION | Authors: | Hashimoto, H, Horton, J.R, Cheng, X. | Deposit date: | 2008-05-05 | Release date: | 2008-09-09 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (3.09 Å) | Cite: | The SRA domain of UHRF1 flips 5-methylcytosine out of the DNA helix Nature, 455, 2008
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3AYU
| Crystal structure of MMP-2 active site mutant in complex with APP-drived decapeptide inhibitor | Descriptor: | 72 kDa type IV collagenase, Amyloid beta A4 protein, CALCIUM ION, ... | Authors: | Hashimoto, H, Takeuchi, T, Komatsu, K, Miyazaki, K, Sato, M, Higashi, S. | Deposit date: | 2011-05-17 | Release date: | 2011-08-03 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Structural basis for matrix metalloproteinase-2 (MMP-2)-selective inhibitory action of {beta}-amyloid precursor protein-derived inhibitor J.Biol.Chem., 2011
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5YD8
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3W08
| Crystal structure of aldoxime dehydratase | Descriptor: | Aldoxime dehydratase, PROTOPORPHYRIN IX CONTAINING FE | Authors: | Hashimoto, H, Nomura, J, Hashimoto, Y, Oinuma, K.I, Wada, K, Hishiki, A, Hara, K, Kobayashi, M. | Deposit date: | 2012-10-24 | Release date: | 2013-02-20 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | Crystal structure of aldoxime dehydratase and its catalytic mechanism involved in carbon-nitrogen triple-bond synthesis. Proc.Natl.Acad.Sci.USA, 110, 2013
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3WGW
| Structure of PCNA bound to a small molecule inhibitor | Descriptor: | 4-{4-[(2S)-2-amino-3-hydroxypropyl]-2,6-diiodophenoxy}phenol, Proliferating cell nuclear antigen, SULFATE ION | Authors: | Hashimoto, H. | Deposit date: | 2013-08-12 | Release date: | 2014-02-05 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | A small molecule inhibitor of monoubiquitinated Proliferating Cell Nuclear Antigen (PCNA) inhibits repair of interstrand DNA cross-link, enhances DNA double strand break, and sensitizes cancer cells to cisplatin. J.Biol.Chem., 289, 2014
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3VKX
| Structure of PCNA | Descriptor: | 3,5,3'TRIIODOTHYRONINE, CHLORIDE ION, Proliferating cell nuclear antigen, ... | Authors: | Hashimoto, H, Hishiki, A, Shimizu, T, Sato, M, Punchihewa, C, Connelly, M, Actis, M, Waddell, B, Pagala, V, Fujii, N. | Deposit date: | 2011-11-26 | Release date: | 2012-03-14 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Identification of small molecule proliferating cell nuclear antigen (PCNA) inhibitor that disrupts interactions with PIP-box proteins and inhibits DNA replication J.Biol.Chem., 287, 2012
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3A57
| Crystal structure of Thermostable Direct Hemolysin | Descriptor: | Thermostable direct hemolysin 2 | Authors: | Hashimoto, H, Yanagihara, I, Nakahira, K, Hamada, D, Ikegami, T, Mayanagi, K, Kaieda, S, Fukui, T, Ohnishi, K, Kajiyama, S, Yamane, T, Ikeguchi, M, Honda, T, Shimizu, T, Sato, M. | Deposit date: | 2009-08-03 | Release date: | 2010-03-31 | Last modified: | 2011-07-13 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | Structure and functional characterization of Vibrio parahaemolyticus thermostable direct hemolysin J.Biol.Chem., 285, 2010
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5F8B
| Crystallographic Structure of PsoE with Co | Descriptor: | (5~{S},8~{S},9~{R})-2-[(~{E})-hex-1-enyl]-8-methoxy-3-methyl-9-oxidanyl-8-(phenylcarbonyl)-1-oxa-7-azaspiro[4.4]non-2-ene-4,6-dione, COBALT (II) ION, GLUTATHIONE, ... | Authors: | Hara, K, Hashimoto, H, Yamamoto, T, Tsunematsu, Y, Watanabe, K. | Deposit date: | 2015-12-09 | Release date: | 2016-04-20 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.54 Å) | Cite: | Oxidative trans to cis Isomerization of Olefins in Polyketide Biosynthesis. Angew. Chem. Int. Ed. Engl., 55, 2016
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8YHR
| DHODH in complex with furocoumavirin | Descriptor: | 4-methyl-8-[(S)-oxidanyl(phenyl)methyl]-9-phenyl-furo[2,3-h]chromen-2-one, ACETATE ION, Dihydroorotate dehydrogenase (quinone), ... | Authors: | Hara, K, Okumura, H, Nakahara, M, Sato, M, Hashimoto, H, Osada, H, Watanabe, K. | Deposit date: | 2024-02-28 | Release date: | 2024-05-22 | Last modified: | 2024-06-05 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Structural and Functional Analyses of Inhibition of Human Dihydroorotate Dehydrogenase by Antiviral Furocoumavirin. Biochemistry, 63, 2024
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8Y2S
| P-hydroxybenzoate hydroxylase complexed with 4-hydroxy-3-methylbenzoic acid | Descriptor: | 3-methyl-4-oxidanyl-benzoic acid, 4-hydroxybenzoate 3-monooxygenase, FLAVIN-ADENINE DINUCLEOTIDE | Authors: | Hara, K, Hashimoto, H, Matsushita, T, Kishimoto, S, Watanabe, K. | Deposit date: | 2024-01-27 | Release date: | 2024-05-01 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Functional Enhancement of Flavin-Containing Monooxygenase through Machine Learning Methodology Acs Catalysis, 14, 2024
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1WN7
| Crystal structure of archaeal family B DNA polymerase mutant | Descriptor: | Family B DNA Polymerase, GLYCEROL, NICKEL (II) ION | Authors: | Kuroita, T, Matsumura, H, Yokota, N, Hashimoto, H, Imanaka, T, Inoue, T, Kai, Y. | Deposit date: | 2004-07-28 | Release date: | 2005-08-02 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.75 Å) | Cite: | Structural Mechanism for Coordination of Proofreading and Polymerase Activities in Archaeal DNA Polymerases J.Mol.Biol., 351, 2005
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8W7D
| Crystal structure of EcPPAT-FR901483 complex | Descriptor: | Amidophosphoribosyltransferase, [(1S,3S,6S,7S,8R,9S)-6-[(4-methoxyphenyl)methyl]-3-(methylamino)-7-oxidanyl-5-azatricyclo[6.3.1.0^1,5]dodecan-9-yl] dihydrogen phosphate | Authors: | Hara, K, Hashimoto, H, Nakahara, M, Sato, M, Watanabe, K. | Deposit date: | 2023-08-30 | Release date: | 2023-12-13 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.81 Å) | Cite: | Uncommon Arrangement of Self-resistance Allows Biosynthesis of de novo Purine Biosynthesis Inhibitor that Acts as an Immunosuppressor. J.Am.Chem.Soc., 145, 2023
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8WU8
| Crystal structure of the human RAD9-RAD1(F64A/M256A/F266A)-HUS1-RHINO(88-99) complex | Descriptor: | Cell cycle checkpoint control protein RAD9A, Cell cycle checkpoint protein RAD1, Checkpoint protein HUS1, ... | Authors: | Hara, K, Nagata, K, Iida, N, Hashimoto, H. | Deposit date: | 2023-10-20 | Release date: | 2024-02-14 | Last modified: | 2024-03-27 | Method: | X-RAY DIFFRACTION (2.81 Å) | Cite: | Structural basis for intra- and intermolecular interactions on RAD9 subunit of 9-1-1 checkpoint clamp implies functional 9-1-1 regulation by RHINO. J.Biol.Chem., 300, 2024
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4XZG
| Crystal structure of HIRAN domain of human HLTF | Descriptor: | Helicase-like transcription factor | Authors: | Ikegaya, Y, Hara, K, Hashimoto, H. | Deposit date: | 2015-02-04 | Release date: | 2015-04-15 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Structure of a Novel DNA-binding Domain of Helicase-like Transcription Factor (HLTF) and Its Functional Implication in DNA Damage Tolerance J.Biol.Chem., 290, 2015
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1WDA
| Crystal structure of human peptidylarginine deiminase type4 (PAD4) in complex with benzoyl-L-arginine amide | Descriptor: | CALCIUM ION, N-[(E)-2-AMINO-1-(3-{[AMINO(IMINO)METHYL]AMINO}PROPYL)-2-HYDROXYVINYL]BENZAMIDE, Protein-arginine deiminase type IV, ... | Authors: | Arita, K, Hashimoto, H, Shimizu, T, Nakashima, K, Yamada, M, Sato, M. | Deposit date: | 2004-05-12 | Release date: | 2004-07-13 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Structural basis for Ca(2+)-induced activation of human PAD4 Nat.Struct.Mol.Biol., 11, 2004
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7BR0
| Crystal structure of AclR, a thioredoxin oxidoreductase fold protein carrying the CXXH catalytic motif | Descriptor: | FLAVIN-ADENINE DINUCLEOTIDE, Pyr_redox_2 domain-containing protein | Authors: | Hara, K, Hashimoto, H, Maeda, N, Watanabe, K, Hertweck, C, Tsunematsu, Y. | Deposit date: | 2020-03-26 | Release date: | 2020-12-23 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.003 Å) | Cite: | Specialized Flavoprotein Promotes Sulfur Migration and Spiroaminal Formation in Aspirochlorine Biosynthesis. J.Am.Chem.Soc., 143, 2021
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5FHI
| Crystallographic structure of PsoE without Co | Descriptor: | GLUTATHIONE, Glutathione S-transferase, putative | Authors: | Hara, K, Hashimoto, H, Yamamoto, T, Tsunematsu, Y, Watanabe, K. | Deposit date: | 2015-12-22 | Release date: | 2016-04-20 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (2.41 Å) | Cite: | Oxidative trans to cis Isomerization of Olefins in Polyketide Biosynthesis. Angew. Chem. Int. Ed. Engl., 55, 2016
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8FJN
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8FJM
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8GNN
| Crystal structure of the human RAD9-RAD1-HUS1-RAD17 complex | Descriptor: | Cell cycle checkpoint control protein RAD9A, Cell cycle checkpoint protein RAD1, Cell cycle checkpoint protein RAD17, ... | Authors: | Hara, K, Nagata, K, Iida, N, Hashimoto, H. | Deposit date: | 2022-08-24 | Release date: | 2023-03-08 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.119 Å) | Cite: | The 9-1-1 DNA clamp subunit RAD1 forms specific interactions with clamp loader RAD17, revealing functional implications for binding-protein RHINO. J.Biol.Chem., 299, 2023
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5EYO
| The crystal structure of the Max bHLH domain in complex with 5-carboxyl cytosine DNA | Descriptor: | DNA (5'-D(*AP*GP*TP*AP*GP*CP*AP*(1CC)P*GP*TP*GP*CP*TP*AP*CP*T)-3'), Protein max | Authors: | Wang, D, Hashimoto, H, Zhang, X, Cheng, X. | Deposit date: | 2015-11-25 | Release date: | 2016-12-14 | Last modified: | 2023-09-27 | Method: | X-RAY DIFFRACTION (2.39 Å) | Cite: | MAX is an epigenetic sensor of 5-carboxylcytosine and is altered in multiple myeloma. Nucleic Acids Res., 45, 2017
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5H6J
| DNA targeting ADP-ribosyltransferase Pierisin-1 in complex with beta-NAD+ | Descriptor: | NICOTINAMIDE-ADENINE-DINUCLEOTIDE, Pierisin-1 | Authors: | Oda, T, Hirabayashi, H, Shikauchi, G, Takamura, R, Hiraga, K, Minami, H, Hashimoto, H, Yamamoto, M, Wakabayashi, K, Sugimura, T, Shimizu, T, Sato, M. | Deposit date: | 2016-11-14 | Release date: | 2017-08-09 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Structural basis of autoinhibition and activation of the DNA-targeting ADP-ribosyltransferase pierisin-1 J. Biol. Chem., 292, 2017
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