5EJK
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![BU of 5ejk by Molmil](/molmil-images/mine/5ejk) | Crystal structure of the Rous sarcoma virus intasome | Descriptor: | DNA (5'-D(*AP*AP*TP*GP*TP*TP*GP*TP*CP*TP*TP*AP*TP*GP*CP*AP*AP*TP*AP*CP*TP*C)-3'), DNA (5'-D(*AP*GP*TP*GP*TP*CP*TP*T)-3'), DNA (5'-D(*CP*TP*TP*CP*TP*CP*TP*C)-3'), ... | Authors: | Yin, Z, Shi, K, Banerjee, S, Aihara, H. | Deposit date: | 2015-11-02 | Release date: | 2016-02-17 | Last modified: | 2023-11-15 | Method: | X-RAY DIFFRACTION (3.8 Å) | Cite: | Crystal structure of the Rous sarcoma virus intasome. Nature, 530, 2016
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2Z7L
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![BU of 2z7l by Molmil](/molmil-images/mine/2z7l) | |
2Z8C
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![BU of 2z8c by Molmil](/molmil-images/mine/2z8c) | |
7UFK
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![BU of 7ufk by Molmil](/molmil-images/mine/7ufk) | Crystal structure of chimeric omicron RBD (strain BA.2) complexed with human ACE2 | Descriptor: | 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... | Authors: | Zhang, W, Shi, K, Geng, Q, Ye, G, Aihara, H, Li, F. | Deposit date: | 2022-03-22 | Release date: | 2022-10-19 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.38 Å) | Cite: | Structural basis for mouse receptor recognition by SARS-CoV-2 omicron variant. Proc.Natl.Acad.Sci.USA, 119, 2022
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7UFL
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![BU of 7ufl by Molmil](/molmil-images/mine/7ufl) | Crystal structure of chimeric omicron RBD (strain BA.2) complexed with chimeric mouse ACE2 | Descriptor: | 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... | Authors: | Zhang, W, Shi, K, Geng, Q, Ye, G, Aihara, H, Li, F. | Deposit date: | 2022-03-22 | Release date: | 2022-10-19 | Last modified: | 2023-10-25 | Method: | X-RAY DIFFRACTION (2.84 Å) | Cite: | Structural basis for mouse receptor recognition by SARS-CoV-2 omicron variant. Proc.Natl.Acad.Sci.USA, 119, 2022
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1Z19
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![BU of 1z19 by Molmil](/molmil-images/mine/1z19) | Crystal structure of a lambda integrase(75-356) dimer bound to a COC' core site | Descriptor: | 33-MER, 5'-D(*CP*TP*CP*GP*TP*TP*CP*AP*GP*CP*TP*TP*TP*TP*TP*T)-3', 5'-D(P*TP*TP*TP*AP*TP*AP*CP*TP*AP*AP*GP*TP*TP*GP*GP*CP*AP*TP*TP*A)-3', ... | Authors: | Biswas, T, Aihara, H, Radman-Livaja, M, Filman, D, Landy, A, Ellenberger, T. | Deposit date: | 2005-03-03 | Release date: | 2005-06-28 | Last modified: | 2021-10-20 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | A structural basis for allosteric control of DNA recombination by lambda integrase. Nature, 435, 2005
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4NQ3
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![BU of 4nq3 by Molmil](/molmil-images/mine/4nq3) | Crystal structure of cyanuic acid hydrolase from A. caulinodans | Descriptor: | BARBITURIC ACID, Cyanuric acid amidohydrolase, MAGNESIUM ION, ... | Authors: | Cho, S, Shi, K, Aihara, H. | Deposit date: | 2013-11-23 | Release date: | 2014-09-10 | Method: | X-RAY DIFFRACTION (2.702 Å) | Cite: | Cyanuric acid hydrolase from Azorhizobium caulinodans ORS 571: crystal structure and insights into a new class of Ser-Lys dyad proteins. Plos One, 9, 2014
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7UU0
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![BU of 7uu0 by Molmil](/molmil-images/mine/7uu0) | Crystal structure of the BRD2-BD2 in complex with a ligand | Descriptor: | 1,2-ETHANEDIOL, Isoform 3 of Bromodomain-containing protein 2, methyl (7S)-7-(thiophen-2-yl)-1,4-thiazepane-4-carboxylate | Authors: | Kalra, P, Shi, K, Aihara, H, Pomerantz, W.C.K. | Deposit date: | 2022-04-28 | Release date: | 2023-05-03 | Last modified: | 2024-05-22 | Method: | X-RAY DIFFRACTION (1.3 Å) | Cite: | Crystal structure of the BRD2-BD2 in complex with a ligand To Be Published
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7U0N
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![BU of 7u0n by Molmil](/molmil-images/mine/7u0n) | Crystal structure of chimeric omicron RBD (strain BA.1) complexed with human ACE2 | Descriptor: | 1,2-ETHANEDIOL, 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... | Authors: | Geng, Q, Shi, K, Ye, G, Zhang, W, Aihara, H, Li, F. | Deposit date: | 2022-02-18 | Release date: | 2022-03-30 | Last modified: | 2023-10-18 | Method: | X-RAY DIFFRACTION (2.61 Å) | Cite: | Structural Basis for Human Receptor Recognition by SARS-CoV-2 Omicron Variant BA.1. J.Virol., 96, 2022
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1Z1B
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![BU of 1z1b by Molmil](/molmil-images/mine/1z1b) | Crystal structure of a lambda integrase dimer bound to a COC' core site | Descriptor: | 26-MER DNA, 29-MER DNA, 5'-D(*CP*T*CP*GP*TP*TP*CP*AP*GP*CP*TP*TP*TP*TP*TP*T)-3', ... | Authors: | Biswas, T, Aihara, H, Radman-Livaja, M, Filman, D, Landy, A, Ellenberger, T. | Deposit date: | 2005-03-03 | Release date: | 2005-06-28 | Last modified: | 2022-04-13 | Method: | X-RAY DIFFRACTION (3.8 Å) | Cite: | A structural basis for allosteric control of DNA recombination by lambda integrase. Nature, 435, 2005
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1Z1G
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![BU of 1z1g by Molmil](/molmil-images/mine/1z1g) | Crystal structure of a lambda integrase tetramer bound to a Holliday junction | Descriptor: | 25-MER, 29-MER, 5'-D(*AP*CP*AP*GP*GP*TP*CP*AP*CP*TP*AP*TP*CP*AP*GP*TP*CP*AP*AP*AP*AP*TP*AP*CP*C)-3', ... | Authors: | Biswas, T, Aihara, H, Radman-Livaja, M, Filman, D, Landy, A, Ellenberger, T. | Deposit date: | 2005-03-03 | Release date: | 2005-06-28 | Last modified: | 2021-10-20 | Method: | X-RAY DIFFRACTION (4.4 Å) | Cite: | A structural basis for allosteric control of DNA recombination by lambda integrase. Nature, 435, 2005
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7K33
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![BU of 7k33 by Molmil](/molmil-images/mine/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
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![BU of 7k30 by Molmil](/molmil-images/mine/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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7K32
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![BU of 7k32 by Molmil](/molmil-images/mine/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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7JN3
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![BU of 7jn3 by Molmil](/molmil-images/mine/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
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![BU of 7k31 by Molmil](/molmil-images/mine/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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7KUI
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![BU of 7kui by Molmil](/molmil-images/mine/7kui) | Cryo-EM structure of Rous sarcoma virus cleaved synaptic complex (CSC) with HIV-1 integrase strand transfer inhibitor MK-2048. CIC region of a cluster identified by 3-dimensional variability analysis in cryoSPARC. | 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: | 2020-11-25 | Release date: | 2021-03-17 | Last modified: | 2024-03-06 | Method: | ELECTRON MICROSCOPY (3.4 Å) | Cite: | Cryo-EM structure of the Rous sarcoma virus octameric cleaved synaptic complex intasome. Commun Biol, 4, 2021
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7KU7
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![BU of 7ku7 by Molmil](/molmil-images/mine/7ku7) | Cryo-EM structure of Rous sarcoma virus cleaved synaptic complex (CSC) with HIV-1 integrase strand transfer inhibitor MK-2048. Cluster identified by 3-dimensional variability analysis in cryoSPARC. | 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: | 2020-11-24 | Release date: | 2021-03-17 | Last modified: | 2024-03-06 | Method: | ELECTRON MICROSCOPY (3.4 Å) | Cite: | Cryo-EM structure of the Rous sarcoma virus octameric cleaved synaptic complex intasome. Commun Biol, 4, 2021
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4YJ0
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![BU of 4yj0 by Molmil](/molmil-images/mine/4yj0) | Crystal structure of the DM domain of human DMRT1 bound to 25mer target DNA | Descriptor: | DNA (25-MER), Doublesex- and mab-3-related transcription factor 1, ZINC ION | Authors: | Murphy, M.W, Lee, J.K, Rojo, S, Gearhart, M.D, Kurahashi, K, Banerjee, S, Loeuille, G, Bashamboo, A, McElreavey, K, Zarkower, D, Aihara, H, Bardwell, V.J. | Deposit date: | 2015-03-02 | Release date: | 2015-05-27 | Last modified: | 2024-06-19 | Method: | X-RAY DIFFRACTION (3.814 Å) | Cite: | An ancient protein-DNA interaction underlying metazoan sex determination. Nat.Struct.Mol.Biol., 22, 2015
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5WFY
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![BU of 5wfy by Molmil](/molmil-images/mine/5wfy) | |
5W8X
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![BU of 5w8x by Molmil](/molmil-images/mine/5w8x) | Lipid A Disaccharide Synthase (LpxB)-7 solubilizing mutations-Bound to UDP | Descriptor: | Lipid-A-disaccharide synthase, URIDINE-5'-DIPHOSPHATE | Authors: | Bohl, T.E, Aihara, H, Shi, K, Lee, J.K. | Deposit date: | 2017-06-22 | Release date: | 2018-01-31 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.98 Å) | Cite: | Crystal structure of lipid A disaccharide synthase LpxB from Escherichia coli. Nat Commun, 9, 2018
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5WLY
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![BU of 5wly by Molmil](/molmil-images/mine/5wly) | E. coli LpxH- 8 mutations | Descriptor: | 1,2-ETHANEDIOL, CHLORIDE ION, FORMIC ACID, ... | Authors: | Bohl, T.E, Aihara, H, Shi, K, Lee, J.K. | Deposit date: | 2017-07-28 | Release date: | 2018-04-11 | Last modified: | 2023-10-04 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | The substrate-binding cap of the UDP-diacylglucosamine pyrophosphatase LpxH is highly flexible, enabling facile substrate binding and product release. J. Biol. Chem., 293, 2018
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5W8N
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![BU of 5w8n by Molmil](/molmil-images/mine/5w8n) | |
5W8S
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![BU of 5w8s by Molmil](/molmil-images/mine/5w8s) | Lipid A Disaccharide Synthase (LpxB)-7 solubilizing mutations | Descriptor: | LITHIUM ION, Lipid-A-disaccharide synthase, SODIUM ION | Authors: | Bohl, T.E, Aihara, H, Shi, K, Lee, J.K. | Deposit date: | 2017-06-22 | Release date: | 2018-01-31 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Crystal structure of lipid A disaccharide synthase LpxB from Escherichia coli. Nat Commun, 9, 2018
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5Y34
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![BU of 5y34 by Molmil](/molmil-images/mine/5y34) | Membrane-bound respiratory [NiFe]-hydrogenase from Hydrogenovibrio marinus in a ferricyanide-oxidized condition | Descriptor: | CARBONMONOXIDE-(DICYANO) IRON, FE3-S4 CLUSTER, FE4-S3 CLUSTER, ... | Authors: | Shomura, Y, Yoon, K.S, Nishihara, H, Higuchi, Y. | Deposit date: | 2017-07-27 | Release date: | 2017-08-16 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.32 Å) | Cite: | Structural basis for a [4Fe-3S] cluster in the oxygen-tolerant membrane-bound [NiFe]-hydrogenase Nature, 479, 2011
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