9DWH
 
 | | DNA Polymerase Beta bound to a nucleosome containing a 1-nt gap at SHL-4.5 (State 2, composite) | | Descriptor: | 601 I strand (damaged strand 1), 601 J strand (non-damaged strand), 601 K strand (damaged strand 2), ... | | Authors: | Weaver, T.M, Ryan, B.J, Freudenthal, B.D. | | Deposit date: | 2024-10-09 | | Release date: | 2025-01-15 | | Method: | ELECTRON MICROSCOPY (3.3 Å) | | Cite: | DNA Polymerase Beta bound to a nucleosome containing a 1-nt gap at SHL-4.5 (State 2, composite)
To Be Published
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9DWL
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8U14
 | | Cryo-EM structure of the human nucleosome core particle ubiquitylated at histone H2A lysine 15 in complex with RNF168-UbcH5c (class 2) | | Descriptor: | DNA (146-MER), DNA (147-MER), E3 ubiquitin-protein ligase RNF168, ... | | Authors: | Hu, Q, Botuyan, M.V, Zhao, D, Cui, G, Mer, G. | | Deposit date: | 2023-08-30 | | Release date: | 2024-01-17 | | Last modified: | 2024-10-16 | | Method: | ELECTRON MICROSCOPY (3.9 Å) | | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation.
Mol.Cell, 84, 2024
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9DWG
 | | DNA Polymerase Beta bound to a nucleosome containing a 1-nt gap at SHL-4.5 (State 1, composite) | | Descriptor: | 601 I strand (damaged strand 1), 601 J strand (non-damaged strand), 601 K strand (damaged strand 2), ... | | Authors: | Weaver, T.M, Ryan, B.J, Freudenthal, B.D. | | Deposit date: | 2024-10-09 | | Release date: | 2025-01-15 | | Method: | ELECTRON MICROSCOPY (3.3 Å) | | Cite: | DNA Polymerase Beta bound to a nucleosome containing a 1-nt gap at SHL-4.5 (State 1, composite)
To Be Published
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9DWM
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9E1P
 | | Snf2h bound nucleosome complex - ClassB2 | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, DNA (152-MER), Histone H2A type 1, ... | | Authors: | Malik, D, Deshmukh, A.A, Bilokapic, S, Halic, M. | | Deposit date: | 2024-10-21 | | Release date: | 2025-01-22 | | Last modified: | 2025-05-28 | | Method: | ELECTRON MICROSCOPY (3.25 Å) | | Cite: | Snf2h bound nucleosome complex-ClassB2
To Be Published
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8UQE
 | | Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 26-residue linker (RING not modeled in density) | | Descriptor: | E3 ubiquitin-protein ligase RNF168,Ubiquitin-conjugating enzyme E2 D3,Histone H2B type 2-E,Histone H2A type 1-B/E | | Authors: | Hu, Q, Botuyan, M.V, Mer, G. | | Deposit date: | 2023-10-23 | | Release date: | 2024-01-17 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (3.562 Å) | | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation.
Mol.Cell, 84, 2024
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9E1Q
 | | Snf2h bound nucleosome complex - ClassB3 | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, DNA (152-MER), Histone H2A type 1, ... | | Authors: | Malik, D, Deshmukh, A.A, Bilokapic, S, Halic, M. | | Deposit date: | 2024-10-21 | | Release date: | 2025-01-22 | | Last modified: | 2025-06-04 | | Method: | ELECTRON MICROSCOPY (3.1 Å) | | Cite: | Snf2h bound nucleosome complex-ClassB3
To Be Published
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9E1O
 | | Snf2h bound nucleosome complex - ClassB1 | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, DNA (148-MER), DNA (150-MER), ... | | Authors: | Malik, D, Deshmukh, A.A, Bilokapic, S, Halic, M. | | Deposit date: | 2024-10-21 | | Release date: | 2025-01-22 | | Last modified: | 2025-05-28 | | Method: | ELECTRON MICROSCOPY (3.3 Å) | | Cite: | Snf2h bound nucleosome complex-ClassB1
To Be Published
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8TXX
 | | Cryo-EM structure of the human nucleosome core particle ubiquitylated at histone H2A K15 in complex with RNF168 (Class 3) | | Descriptor: | DNA (147-MER), E3 ubiquitin-protein ligase RNF168, Histone H2A type 1-B/E, ... | | Authors: | Hu, Q, Botuyan, M.V, Zhao, D, Cui, G, Mer, G. | | Deposit date: | 2023-08-24 | | Release date: | 2024-01-17 | | Last modified: | 2024-10-23 | | Method: | ELECTRON MICROSCOPY (3.7 Å) | | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation.
Mol.Cell, 84, 2024
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9E1N
 | | Snf2h bound nucleosome complex-ClassA3 | | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, DNA (149-MER), DNA (151-MER), ... | | Authors: | Malik, D, Deshmukh, A.A, Bilokapic, S, Halic, M. | | Deposit date: | 2024-10-21 | | Release date: | 2025-01-22 | | Last modified: | 2025-05-28 | | Method: | ELECTRON MICROSCOPY (3.4 Å) | | Cite: | Snf2h bound nucleosome complex-ClassA3
To Be Published
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9CG9
 | | Cryo-EM structure of an HMGB1 box bound to nucleosome at SHL-2 | | Descriptor: | High mobility group protein B1, Histone H2A type 1, Histone H2B, ... | | Authors: | Chio, U.S, Saunders, H.S, Narlikar, G.J, Cheng, Y. | | Deposit date: | 2024-06-28 | | Release date: | 2025-07-02 | | Method: | ELECTRON MICROSCOPY (2.94 Å) | | Cite: | Competition between HMGB1 and H1 on nucleosomes tunes dynamics within condensed chromatin
To Be Published
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8UQA
 | | Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 12-residue linker | | Descriptor: | CHLORIDE ION, E3 ubiquitin-protein ligase RNF168,Ubiquitin-conjugating enzyme E2 D3,Histone H2B type 2-E,Histone H2A type 1-B/E, SODIUM ION, ... | | Authors: | Hu, Q, Botuyan, M.V, Mer, G. | | Deposit date: | 2023-10-23 | | Release date: | 2024-01-17 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.049 Å) | | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation.
Mol.Cell, 84, 2024
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8TXV
 | | Cryo-EM structure of the human nucleosome core particle ubiquitylated at histone H2A K15 in complex with RNF168 (Class 1) | | Descriptor: | DNA (147-MER), E3 ubiquitin-protein ligase RNF168, Histone H2A type 1-B/E, ... | | Authors: | Hu, Q, Botuyan, M.V, Zhao, D, Cui, G, Mer, G. | | Deposit date: | 2023-08-24 | | Release date: | 2024-01-17 | | Last modified: | 2024-11-13 | | Method: | ELECTRON MICROSCOPY (3.8 Å) | | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation.
Mol.Cell, 84, 2024
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8UQB
 | | Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 20-residue linker (crystallization condition 1) | | Descriptor: | CHLORIDE ION, E3 ubiquitin-protein ligase RNF168,Ubiquitin-conjugating enzyme E2 D3,Histone H2B type 2-E,Histone H2A type 1-B/E, ZINC ION | | Authors: | Hu, Q, Botuyan, M.V, Mer, G. | | Deposit date: | 2023-10-23 | | Release date: | 2024-01-17 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.484 Å) | | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation.
Mol.Cell, 84, 2024
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8UPF
 | | Cryo-EM structure of the human nucleosome core particle in complex with RNF168-UbcH5c | | Descriptor: | DNA (147-MER), E3 ubiquitin-protein ligase RNF168, Histone H2A type 1-B/E, ... | | Authors: | Hu, Q, Botuyan, M.V, Zhao, D, Cui, G, Mer, G. | | Deposit date: | 2023-10-22 | | Release date: | 2024-01-17 | | Last modified: | 2024-11-06 | | Method: | ELECTRON MICROSCOPY (3.2 Å) | | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation.
Mol.Cell, 84, 2024
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8UQ9
 | | Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 4-residue linker | | Descriptor: | CHLORIDE ION, E3 ubiquitin-protein ligase RNF168,Ubiquitin-conjugating enzyme E2 D3,Histone H2B type 2-E,Histone H2A type 1-B/E, GLYCEROL, ... | | Authors: | Hu, Q, Botuyan, M.V, Mer, G. | | Deposit date: | 2023-10-23 | | Release date: | 2024-01-17 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation.
Mol.Cell, 84, 2024
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8U13
 | | Cryo-EM structure of the human nucleosome core particle ubiquitylated at histone H2A lysine 15 in complex with RNF168-UbcH5c (class 1) | | Descriptor: | DNA (146-MER), DNA (147-MER), E3 ubiquitin-protein ligase RNF168, ... | | Authors: | Hu, Q, Botuyan, M.V, Zhao, D, Cui, G, Mer, G. | | Deposit date: | 2023-08-30 | | Release date: | 2024-01-17 | | Last modified: | 2024-11-13 | | Method: | ELECTRON MICROSCOPY (3.8 Å) | | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation.
Mol.Cell, 84, 2024
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8UQ8
 | | Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 2-residue linker | | Descriptor: | CHLORIDE ION, E3 ubiquitin-protein ligase RNF168,Ubiquitin-conjugating enzyme E2 D3,Histone H2B type 2-E,Histone H2A type 1-B/E, GLYCEROL, ... | | Authors: | Hu, Q, Botuyan, M.V, Mer, G. | | Deposit date: | 2023-10-23 | | Release date: | 2024-01-17 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.34 Å) | | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation.
Mol.Cell, 84, 2024
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8UQD
 | | Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 20-residue linker (condition 2. RING not modeled in density) | | Descriptor: | E3 ubiquitin-protein ligase RNF168,Ubiquitin-conjugating enzyme E2 D3,Histone H2B type 2-E,Histone H2A type 1-B/E | | Authors: | Hu, Q, Botuyan, M.V, Mer, G. | | Deposit date: | 2023-10-23 | | Release date: | 2024-01-17 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (3.893 Å) | | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation.
Mol.Cell, 84, 2024
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8UQC
 | | Crystal structure of RNF168 (RING)-UbcH5c fused to H2A-H2B via a 20-residue linker (crystallization condition 2) | | Descriptor: | E3 ubiquitin-protein ligase RNF168,Ubiquitin-conjugating enzyme E2 D3,Histone H2B type 2-E,Histone H2A type 1-B/E, ZINC ION | | Authors: | Hu, Q, Botuyan, M.V, Mer, G. | | Deposit date: | 2023-10-23 | | Release date: | 2024-01-17 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.61 Å) | | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation.
Mol.Cell, 84, 2024
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8TXW
 | | Cryo-EM structure of the human nucleosome core particle ubiquitylated at histone H2A K15 in complex with RNF168 (Class 2) | | Descriptor: | DNA (147-MER), E3 ubiquitin-protein ligase RNF168, Histone H2A type 1-B/E, ... | | Authors: | Hu, Q, Botuyan, M.V, Zhao, D, Cui, G, Mer, G. | | Deposit date: | 2023-08-24 | | Release date: | 2024-01-17 | | Last modified: | 2024-10-09 | | Method: | ELECTRON MICROSCOPY (3.6 Å) | | Cite: | Mechanisms of RNF168 nucleosome recognition and ubiquitylation.
Mol.Cell, 84, 2024
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9EOZ
 | | Human OGG1 bound to a nucleosome core particle with 8-oxodGuo lesion at SHL6.0 | | Descriptor: | Histone H2A type 1-C, Histone H2B type 1-C/E/F/G/I, Histone H3.3, ... | | Authors: | Ren, M, Gut, F, Fan, Y, Hopfner, K.-P, Zhou, C. | | Deposit date: | 2024-03-16 | | Release date: | 2024-11-06 | | Method: | ELECTRON MICROSCOPY (3.1 Å) | | Cite: | Structural basis for human OGG1 processing 8-oxodGuo within nucleosome core particles.
Nat Commun, 15, 2024
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8IHM
 | | Eaf3 CHD domain bound to the nucleosome | | Descriptor: | Chromatin modification-related protein EAF3, DNA (164-MER), DNA (165-MER), ... | | Authors: | Zhang, Y, Gang, C. | | Deposit date: | 2023-02-23 | | Release date: | 2024-03-20 | | Last modified: | 2024-11-06 | | Method: | ELECTRON MICROSCOPY (3.58 Å) | | Cite: | Structural basis for nucleosome binding and catalysis by the yeast Rpd3S/HDAC holoenzyme.
Cell Res., 33, 2023
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8IHT
 | | Rpd3S bound to the nucleosome | | Descriptor: | CALCIUM ION, Chromatin modification-related protein EAF3, DNA (164-MER), ... | | Authors: | Zhang, Y, Gang, C. | | Deposit date: | 2023-02-23 | | Release date: | 2024-03-20 | | Last modified: | 2024-10-30 | | Method: | ELECTRON MICROSCOPY (3.72 Å) | | Cite: | Structural basis for nucleosome binding and catalysis by the yeast Rpd3S/HDAC holoenzyme.
Cell Res., 33, 2023
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