8G87
| Human Oct4 bound to nucleosome with human nMatn1 sequence (focused refinement of Oct4 bound region) | Descriptor: | POU domain, class 5, transcription factor 1, ... | Authors: | Sinha, K.K, Bilokapic, S, Du, Y, Malik, D, Halic, M. | Deposit date: | 2023-02-17 | Release date: | 2023-03-22 | Last modified: | 2024-06-19 | Method: | ELECTRON MICROSCOPY (8.1 Å) | Cite: | Histone modifications regulate pioneer transcription factor cooperativity. Nature, 619, 2023
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8G88
| Human Oct4 bound to nucleosome with human nMatn1 sequence | Descriptor: | Histone H2A, Histone H2B, Histone H3, ... | Authors: | Sinha, K.K, Bilokapic, S, Du, Y, Malik, D, Halic, M. | Deposit date: | 2023-02-17 | Release date: | 2023-03-22 | Last modified: | 2024-06-19 | Method: | ELECTRON MICROSCOPY (2.3 Å) | Cite: | Histone modifications regulate pioneer transcription factor cooperativity. Nature, 619, 2023
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3MX9
| Molecular basis of engineered meganuclease targeting of the endogenous human RAG1 locus | Descriptor: | CALCIUM ION, DNA (5'-D(*TP*CP*TP*GP*GP*CP*TP*GP*AP*GP*GP*TP*AP*CP*CP*TP*GP*AP*GP*AP*AP*CP*AP*A)-3'), DNA (5'-D(*TP*TP*GP*TP*TP*CP*TP*CP*AP*GP*GP*TP*AP*CP*CP*TP*CP*AP*GP*CP*CP*AP*GP*A)-3'), ... | Authors: | Munoz, I.G, Prieto, J, Subramanian, S, Coloma, J, Montoya, G. | Deposit date: | 2010-05-07 | Release date: | 2010-10-06 | Last modified: | 2024-02-21 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Molecular basis of engineered meganuclease targeting of the endogenous human RAG1 locus. Nucleic Acids Res., 39, 2011
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3MXB
| Molecular basis of engineered meganuclease targeting of the endogenous human RAG1 locus | Descriptor: | CALCIUM ION, DNA (5'-D(*TP*CP*TP*GP*GP*CP*TP*GP*AP*GP*GP*TP*AP*CP*CP*TP*GP*AP*GP*AP*AP*CP*AP*A)-3'), DNA (5'-D(*TP*TP*GP*TP*TP*CP*TP*CP*AP*GP*GP*TP*AP*CP*CP*TP*CP*AP*GP*CP*CP*AP*GP*A)-3'), ... | Authors: | Munoz, I.G, Prieto, J, Subramanian, S, Coloma, J, Montoya, G. | Deposit date: | 2010-05-07 | Release date: | 2010-10-06 | Last modified: | 2024-02-21 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Molecular basis of engineered meganuclease targeting of the endogenous human RAG1 locus. Nucleic Acids Res., 39, 2011
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8HXZ
| Cryo-EM structure of Eaf3 CHD in complex with nucleosome | Descriptor: | Chromatin modification-related protein EAF3, DNA (352-MER), Histone H2A, ... | Authors: | Cui, H, Wang, H. | Deposit date: | 2023-01-05 | Release date: | 2023-09-27 | Last modified: | 2024-10-09 | Method: | ELECTRON MICROSCOPY (3.4 Å) | Cite: | Structure of histone deacetylase complex Rpd3S bound to nucleosome. Nat.Struct.Mol.Biol., 30, 2023
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6RQC
| Cryo-EM structure of an MCM loading intermediate | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, ADENOSINE-5'-TRIPHOSPHATE, DNA (88-MER), ... | Authors: | Miller, T.C.R, Locke, J, Costa, A. | Deposit date: | 2019-05-15 | Release date: | 2019-11-20 | Last modified: | 2024-05-22 | Method: | ELECTRON MICROSCOPY (4.4 Å) | Cite: | Mechanism of head-to-head MCM double-hexamer formation revealed by cryo-EM. Nature, 575, 2019
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7VVU
| NuA4 HAT module bound to the nucleosome | Descriptor: | CARBOXYMETHYL COENZYME *A, Chromatin modification-related protein EAF6, Chromatin modification-related protein YNG2, ... | Authors: | Chen, Z, Qu, K. | Deposit date: | 2021-11-09 | Release date: | 2022-08-10 | Last modified: | 2022-11-16 | Method: | ELECTRON MICROSCOPY (3.4 Å) | Cite: | Structure of the NuA4 acetyltransferase complex bound to the nucleosome. Nature, 610, 2022
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1TWG
| RNA polymerase II complexed with CTP | Descriptor: | CYTIDINE-5'-TRIPHOSPHATE, DNA-directed RNA polymerase II 13.6 kDa polypeptide, DNA-directed RNA polymerase II 14.2 kDa polypeptide, ... | Authors: | Westover, K.D, Bushnell, D.A, Kornberg, R.D. | Deposit date: | 2004-06-30 | Release date: | 2004-11-16 | Last modified: | 2023-08-23 | Method: | X-RAY DIFFRACTION (3.3 Å) | Cite: | Structural basis of transcription: nucleotide selection by rotation in the RNA polymerase II active center. Cell(Cambridge,Mass.), 119, 2004
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1TWH
| RNA polymerase II complexed with 2'dATP | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, DNA-directed RNA polymerase II 13.6 kDa polypeptide, DNA-directed RNA polymerase II 14.2 kDa polypeptide, ... | Authors: | Westover, K.D, Bushnell, D.A, Kornberg, R.D. | Deposit date: | 2004-06-30 | Release date: | 2004-11-16 | Last modified: | 2023-08-23 | Method: | X-RAY DIFFRACTION (3.4 Å) | Cite: | Structural basis of transcription: nucleotide selection by rotation in the RNA polymerase II active center. Cell(Cambridge,Mass.), 119, 2004
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1TWA
| RNA polymerase II complexed with ATP | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, DNA-directed RNA polymerase II 13.6 kDa polypeptide, DNA-directed RNA polymerase II 14.2 kDa polypeptide, ... | Authors: | Westover, K.D, Bushnell, D.A, Kornberg, R.D. | Deposit date: | 2004-06-30 | Release date: | 2004-11-16 | Last modified: | 2023-08-23 | Method: | X-RAY DIFFRACTION (3.2 Å) | Cite: | Structural basis of transcription: nucleotide selection by rotation in the RNA polymerase II active center. Cell(Cambridge,Mass.), 119, 2004
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4I6R
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4IA8
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6L9Z
| 338 bp di-nucleosome assembled with linker histone H1.X | Descriptor: | CALCIUM ION, CHLORIDE ION, DNA (338-MER), ... | Authors: | Adhireksan, Z, Sharma, D, Lee, P.L, Davey, C.A. | Deposit date: | 2019-11-11 | Release date: | 2021-02-17 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Engineering nucleosomes for generating diverse chromatin assemblies. Nucleic Acids Res., 49, 2021
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4I6U
| Crystal Structure of a Y37F mutant of the Restriction-Modification Controller Protein C.Esp1396I | Descriptor: | ACETATE ION, DI(HYDROXYETHYL)ETHER, GLYCEROL, ... | Authors: | Martin, R.N.A, McGeehan, J.E, Kneale, G.G. | Deposit date: | 2012-11-30 | Release date: | 2013-11-13 | Last modified: | 2024-02-28 | Method: | X-RAY DIFFRACTION (1.97 Å) | Cite: | Structural and Mutagenic Analysis of the RM Controller Protein C.Esp1396I. Plos One, 9, 2014
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4I6T
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8F5Q
| Crystal structure of human PCNA in complex with the PIP box of FBH1 | Descriptor: | F-box DNA helicase 1, Proliferating cell nuclear antigen | Authors: | Liu, J, Chaves-Arquero, B, Wei, P, Tencer, H, Zhang, G, Blanco, F, Kutateladze, T. | Deposit date: | 2022-11-15 | Release date: | 2023-09-27 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Molecular insight into the PCNA-binding mode of FBH1. Structure, 31, 2023
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4GEW
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8G8B
| Nucleosome with human nMatn1 sequence in complex with Human Oct4 | Descriptor: | Histone H2A, Histone H2B, Histone H3, ... | Authors: | Sinha, K.K, Bilokapic, S, Du, Y, Malik, D, Halic, M. | Deposit date: | 2023-02-17 | Release date: | 2023-03-22 | Last modified: | 2024-06-19 | Method: | ELECTRON MICROSCOPY (4.3 Å) | Cite: | Histone modifications regulate pioneer transcription factor cooperativity. Nature, 619, 2023
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8G8E
| Human Oct4 bound to nucleosome with human LIN28B sequence | Descriptor: | LIN28B DNA (32-MER), POU domain, class 5, ... | Authors: | Sinha, K.K, Bilokapic, S, Du, Y, Malik, D, Halic, M. | Deposit date: | 2023-02-17 | Release date: | 2023-03-22 | Last modified: | 2024-06-19 | Method: | ELECTRON MICROSCOPY (3.9 Å) | Cite: | Histone modifications regulate pioneer transcription factor cooperativity. Nature, 619, 2023
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8G8G
| Interaction of H3 tail in LIN28B nucleosome with Oct4 | Descriptor: | Histone H2A, Histone H2B, Histone H3, ... | Authors: | Sinha, K.K, Bilokapic, S, Du, Y, Malik, D, Halic, M. | Deposit date: | 2023-02-17 | Release date: | 2023-03-22 | Last modified: | 2023-12-13 | Method: | ELECTRON MICROSCOPY (3.2 Å) | Cite: | Histone modifications regulate pioneer transcription factor cooperativity. Nature, 619, 2023
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3MU6
| Inhibiting the Binding of Class IIa Histone Deacetylases to Myocyte Enhancer Factor-2 by Small Molecules | Descriptor: | (3E)-N~8~-(2-aminophenyl)-N~1~-phenyloct-3-enediamide, DNA (5'-D(*AP*AP*AP*GP*CP*TP*AP*TP*TP*AP*TP*TP*AP*GP*CP*TP*T)-3'), DNA (5'-D(*TP*AP*AP*GP*CP*TP*AP*AP*TP*AP*AP*TP*AP*GP*CP*TP*T)-3'), ... | Authors: | Jayathilaka, N, Han, A, Gaffney, K, Dey, R, He, J, Ye, J, Gao, T, Petasis, N.A, Chen, L. | Deposit date: | 2010-05-01 | Release date: | 2011-11-02 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (2.434 Å) | Cite: | Inhibition of the function of class IIa HDACs by blocking their interaction with MEF2. Nucleic Acids Res., 40, 2012
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4ZM0
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4CN7
| Crystal Structure of the Human Retinoid X Receptor DNA-Binding Domain Bound to an idealized DR1 Response Element | Descriptor: | 5'-D(*CP*TP*AP*GP*GP*TP*CP*AP*AP*AP*GP*GP*TP*CP *AP*GP)-3', 5'-D(*CP*TP*GP*AP*CP*CP*TP*TP*TP*GP*AP*CP*CP*TP *AP*GP)-3', CHLORIDE ION, ... | Authors: | McEwen, A.G, Poussin-Courmontagne, P, Osz, J, Rochel, N. | Deposit date: | 2014-01-21 | Release date: | 2015-02-18 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (2.34 Å) | Cite: | Structural Basis of Natural Promoter Recognition by the Retinoid X Nuclear Receptor. Sci.Rep., 5, 2015
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4CN5
| Crystal Structure of the Human Retinoid X Receptor DNA-Binding Domain Bound to the Human Nr1d1 Response Element | Descriptor: | 5'-D(*AP*TP*TP*GP*AP*AP*CP*TP*CP*TP*GP*AP*CP*CP *CP*CP*AP)-3', 5'-D(*TP*GP*GP*GP*GP*TP*CP*AP*GP*AP*GP*TP*TP*CP *AP*AP*TP)-3', CHLORIDE ION, ... | Authors: | McEwen, A.G, Poussin-Courmontagne, P, Osz, J, Rochel, N. | Deposit date: | 2014-01-21 | Release date: | 2015-02-18 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Structural Basis of Natural Promoter Recognition by the Retinoid X Nuclear Receptor. Sci.Rep., 5, 2015
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4CN2
| Crystal Structure of the Human Retinoid X Receptor DNA-Binding Domain Bound to the Human Ramp2 Response Element | Descriptor: | 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 5'-D(*AP*TP*TP*GP*AP*CP*CP*CP*TP*TP*GP*AP*AP*DC *TP*CP*AP)-3', 5'-D(*TP*GP*AP*GP*TP*TP*CP*AP*AP*GP*GP*GP*TP*DC *AP*AP*TP)-3', ... | Authors: | McEwen, A.G, Poussin-Courmontagne, P, Osz, J, Rochel, N. | Deposit date: | 2014-01-21 | Release date: | 2015-02-18 | Last modified: | 2023-12-20 | Method: | X-RAY DIFFRACTION (2.069 Å) | Cite: | Structural Basis of Natural Promoter Recognition by the Retinoid X Nuclear Receptor. Sci.Rep., 5, 2015
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