6CWJ
| Crystal structures of cyanuric acid hydrolase from Moorella thermoacetica complexed with 1,3-Acetone Dicarboxylic Acid | Descriptor: | 1,3-PROPANDIOL, 3-oxopentanedioic acid, ACETATE ION, ... | Authors: | Shi, K, Aihara, H. | Deposit date: | 2018-03-30 | Release date: | 2019-06-12 | Last modified: | 2023-10-04 | Method: | X-RAY DIFFRACTION (2.253 Å) | Cite: | Crystal structures of Moorella thermoacetica cyanuric acid hydrolase reveal conformational flexibility and asymmetry important for catalysis. Plos One, 14, 2019
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6BUP
| Crystal structures of cyanuric acid hydrolase from Moorella thermoacetica complexed with cyanuric acid | Descriptor: | 1,3,5-triazine-2,4,6-triol, 1,3-PROPANDIOL, CALCIUM ION, ... | Authors: | Shi, K, Aihara, H. | Deposit date: | 2017-12-11 | Release date: | 2019-06-12 | Last modified: | 2023-10-04 | Method: | X-RAY DIFFRACTION (1.88 Å) | Cite: | Crystal structures of Moorella thermoacetica cyanuric acid hydrolase reveal conformational flexibility and asymmetry important for catalysis. Plos One, 14, 2019
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7KM6
| APOBEC3B antibody 5G7 Fv-clasp | Descriptor: | 1,2-ETHANEDIOL, 5G7 human monoclonal FAB heavy chain, 5G7 human monoclonal FAB light chain, ... | Authors: | Tang, H, Shi, K, Aihara, H. | Deposit date: | 2020-11-02 | Release date: | 2021-05-12 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (1.67 Å) | Cite: | Structural Characterization of a Minimal Antibody against Human APOBEC3B. Viruses, 13, 2021
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6BUQ
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6DHJ
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6DRT
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7JT4
| Crystal Structure of BPTF bromodomain labelled with 5-fluoro-tryptophan | Descriptor: | Nucleosome-remodeling factor subunit BPTF | Authors: | Johnson, J.A, Shi, K, Aihara, H, Pomerantz, W.C.K. | Deposit date: | 2020-08-17 | Release date: | 2021-07-28 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.06 Å) | Cite: | Selectivity, ligand deconstruction, and cellular activity analysis of a BPTF bromodomain inhibitor Org.Biomol.Chem., 17, 2019
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4E0J
| Protelomerase tela R255A mutant complexed with DNA hairpin product | Descriptor: | CHLORIDE ION, DNA (5'-D(*CP*AP*TP*AP*AP*TP*AP*AP*CP*AP*AP*TP*A)-3'), DNA (5'-D(*TP*CP*AP*TP*GP*AP*TP*AP*TP*TP*GP*TP*TP*AP*TP*TP*AP*TP*G)-3'), ... | Authors: | Shi, K, Aihara, H. | Deposit date: | 2012-03-04 | Release date: | 2013-02-13 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | An enzyme-catalyzed multistep DNA refolding mechanism in hairpin telomere formation. Plos Biol., 11, 2013
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4E0Y
| Protelomerase tela covalently complexed with mutated substrate DNA | Descriptor: | DNA (5'-D(*CP*AP*TP*AP*AP*TP*AP*AP*CP*AP*AP*TP*AP*T)-3'), DNA (5'-D(*CP*CP*AP*TP*GP*AP*TP*AP*TP*TP*GP*TP*TP*AP*TP*TP*AP*TP*G)-3'), GLYCEROL, ... | Authors: | Shi, K, Aihara, H. | Deposit date: | 2012-03-05 | Release date: | 2013-02-13 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | An enzyme-catalyzed multistep DNA refolding mechanism in hairpin telomere formation. Plos Biol., 11, 2013
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4EP4
| Thermus thermophilus RuvC structure | Descriptor: | Crossover junction endodeoxyribonuclease RuvC, GLYCEROL, MAGNESIUM ION | Authors: | Chen, L, Shi, K, Yin, Z.Q, Aihara, H. | Deposit date: | 2012-04-17 | Release date: | 2012-11-14 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (1.28 Å) | Cite: | Structural asymmetry in the Thermus thermophilus RuvC dimer suggests a basis for sequential strand cleavages during Holliday junction resolution. Nucleic Acids Res., 41, 2013
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4E0P
| Protelomerase tela covalently complexed with substrate DNA | Descriptor: | 1,2-ETHANEDIOL, DNA (5'-D(*CP*AP*TP*AP*AP*TP*AP*AP*CP*AP*AP*TP*AP*T)-3'), DNA (5'-D(*CP*AP*TP*GP*AP*TP*AP*TP*TP*GP*TP*TP*AP*TP*TP*AP*TP*G)-3'), ... | Authors: | Shi, K, Aihara, H. | Deposit date: | 2012-03-05 | Release date: | 2013-02-13 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | An enzyme-catalyzed multistep DNA refolding mechanism in hairpin telomere formation. Plos Biol., 11, 2013
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4E10
| Protelomerase tela Y201A covalently complexed with substrate DNA | Descriptor: | DNA (5'-D(*CP*AP*TP*AP*AP*(BRU)P*AP*AP*CP*AP*AP*(BRU)P*AP*T)-3'), DNA (5'-D(*CP*AP*TP*GP*AP*TP*AP*(BRU)P*(BRU)P*GP*(BRU)P*(BRU)P*AP*(BRU)P*(BRU)P*AP*(BRU)P*G)-3'), Protelomerase, ... | Authors: | Shi, K, Aihara, H. | Deposit date: | 2012-03-05 | Release date: | 2013-02-13 | Method: | X-RAY DIFFRACTION (2.506 Å) | Cite: | An enzyme-catalyzed multistep DNA refolding mechanism in hairpin telomere formation. Plos Biol., 11, 2013
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4EP5
| Thermus thermophilus RuvC structure | Descriptor: | Crossover junction endodeoxyribonuclease RuvC, GLYCEROL, SULFATE ION | Authors: | Chen, L, Shi, K, Yin, Z.Q, Aihara, H. | Deposit date: | 2012-04-17 | Release date: | 2012-11-14 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (2.08 Å) | Cite: | Structural asymmetry in the Thermus thermophilus RuvC dimer suggests a basis for sequential strand cleavages during Holliday junction resolution. Nucleic Acids Res., 41, 2013
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4DWP
| SeMet protelomerase tela covalently complexed with substrate DNA | Descriptor: | DNA (5'-D(*CP*AP*TP*GP*AP*TP*AP*TP*TP*GP*TP*TP*AP*TP*TP*GP*TP*AP*A)-3'), DNA (5'-D(*TP*TP*AP*CP*AP*AP*TP*AP*AP*CP*AP*AP*TP*AP*T)-3'), Protelomerase, ... | Authors: | Shi, K, Aihara, H. | Deposit date: | 2012-02-26 | Release date: | 2013-02-13 | Method: | X-RAY DIFFRACTION (2.35 Å) | Cite: | An enzyme-catalyzed multistep DNA refolding mechanism in hairpin telomere formation. Plos Biol., 11, 2013
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4F1I
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4E0G
| Protelomerase tela/DNA hairpin product/vanadate complex | Descriptor: | DNA (5'-D(*CP*AP*TP*AP*AP*TP*AP*AP*CP*AP*AP*TP*A)-3'), DNA (5'-D(*TP*CP*AP*TP*GP*AP*TP*AP*TP*TP*GP*TP*TP*AP*TP*TP*AP*TP*G)-3'), Protelomerase, ... | Authors: | Shi, K, Aihara, H. | Deposit date: | 2012-03-03 | Release date: | 2013-02-13 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | An enzyme-catalyzed multistep DNA refolding mechanism in hairpin telomere formation. Plos Biol., 11, 2013
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4E0Z
| Protelomerase tela R205A covalently complexed with substrate DNA | Descriptor: | DNA (5'-D(*CP*AP*TP*AP*AP*TP*AP*AP*CP*AP*AP*TP*A)-3'), DNA (5'-D(*TP*CP*A*TP*GP*AP*TP*AP*TP*TP*GP*TP*TP*AP*TP*TP*AP*TP*G)-3'), GLYCEROL, ... | Authors: | Shi, K, Aihara, H. | Deposit date: | 2012-03-05 | Release date: | 2013-02-13 | Method: | X-RAY DIFFRACTION (2.42 Å) | Cite: | An enzyme-catalyzed multistep DNA refolding mechanism in hairpin telomere formation. Plos Biol., 11, 2013
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4F1H
| Crystal structure of TDP2 from Danio rerio complexed with a single strand DNA | Descriptor: | DNA (5'-D(P*TP*GP*CP*AP*G)-3'), GLYCEROL, MAGNESIUM ION, ... | Authors: | Shi, K, Kurahashi, K, Aihara, H. | Deposit date: | 2012-05-06 | Release date: | 2012-10-31 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (1.662 Å) | Cite: | Structural basis for recognition of 5'-phosphotyrosine adducts by Tdp2. Nat.Struct.Mol.Biol., 19, 2012
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4FPV
| Crystal structure of D. rerio TDP2 complexed with single strand DNA product | Descriptor: | DNA (5'-D(P*TP*GP*CP*AP*G)-3'), GLYCEROL, MAGNESIUM ION, ... | Authors: | Shi, K, Kurahashi, K, Aihara, H. | Deposit date: | 2012-06-22 | Release date: | 2012-10-31 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.73 Å) | Cite: | Structural basis for recognition of 5'-phosphotyrosine adducts by Tdp2. Nat.Struct.Mol.Biol., 19, 2012
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4FW2
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7K32
| Crystal structure of Endonuclease Q complex with 27-mer duplex substrate with an abasic lesion at the active site | Descriptor: | DNA (27-MER), Endonuclease Q, MAGNESIUM ION, ... | Authors: | Shi, K, Moeller, N.M, Banerjee, S, Yin, L, Orellana, K, Aihara, H. | Deposit date: | 2020-09-10 | Release date: | 2021-03-17 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (3.11 Å) | Cite: | Structural basis for recognition of distinct deaminated DNA lesions by endonuclease Q. Proc.Natl.Acad.Sci.USA, 118, 2021
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7K33
| Crystal structure of Endonuclease Q complex with 27-mer duplex substrate with an abasic lesion at the active site | Descriptor: | DNA (27-MER), Endonuclease Q, MAGNESIUM ION, ... | Authors: | Shi, K, Moeller, N.M, Banerjee, S, Yin, L, Orellana, K, Aihara, H. | Deposit date: | 2020-09-10 | Release date: | 2021-03-17 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (3.11 Å) | Cite: | Structural basis for recognition of distinct deaminated DNA lesions by endonuclease Q. Proc.Natl.Acad.Sci.USA, 118, 2021
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7K30
| Crystal structure of Endonuclease Q complex with 27-mer duplex substrate with dU at the active site | Descriptor: | 1,2-ETHANEDIOL, DNA (27-MER), Endonuclease Q, ... | Authors: | Shi, K, Moeller, N.M, Banerjee, S, Yin, L, Orellana, K, Aihara, H. | Deposit date: | 2020-09-10 | Release date: | 2021-03-17 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.34 Å) | Cite: | Structural basis for recognition of distinct deaminated DNA lesions by endonuclease Q. Proc.Natl.Acad.Sci.USA, 118, 2021
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7JN3
| Cryo-EM structure of Rous sarcoma virus cleaved synaptic complex (CSC) with HIV-1 integrase strand transfer inhibitor MK-2048 | Descriptor: | (6S)-2-(3-chloro-4-fluorobenzyl)-8-ethyl-10-hydroxy-N,6-dimethyl-1,9-dioxo-1,2,6,7,8,9-hexahydropyrazino[1',2':1,5]pyrrolo[2,3-d]pyridazine-4-carboxamide, DNA (5'-D(*AP*AP*TP*GP*TP*TP*GP*TP*CP*TP*TP*AP*TP*GP*CP*AP*AP*T)-3'), DNA (5'-D(*AP*TP*TP*GP*CP*AP*TP*AP*AP*GP*AP*CP*AP*AP*CP*A)-3'), ... | Authors: | Pandey, K.K, Bera, S, Shi, K, Aihara, H, Grandgenett, D.P. | Deposit date: | 2020-08-03 | Release date: | 2021-03-17 | Last modified: | 2024-05-15 | Method: | ELECTRON MICROSCOPY (3.21 Å) | Cite: | Cryo-EM structure of the Rous sarcoma virus octameric cleaved synaptic complex intasome. Commun Biol, 4, 2021
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7K31
| Crystal structure of Endonuclease Q complex with 27-mer duplex substrate with dI at the active site | Descriptor: | 1,2-ETHANEDIOL, CHLORIDE ION, DNA (27-MER), ... | Authors: | Shi, K, Moeller, N.M, Banerjee, S, Yin, L, Orellana, K, Aihara, H. | Deposit date: | 2020-09-10 | Release date: | 2021-03-17 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.88 Å) | Cite: | Structural basis for recognition of distinct deaminated DNA lesions by endonuclease Q. Proc.Natl.Acad.Sci.USA, 118, 2021
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