6L49
| H3-CA-H3 tri-nucleosome with the 22 base-pair linker DNA | Descriptor: | DNA (485-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | Authors: | Takizawa, Y, Ho, C.-H, Tachiwana, H, Matsunami, H, Ohi, M, Wolf, M, Kurumizaka, H. | Deposit date: | 2019-10-16 | Release date: | 2019-12-04 | Last modified: | 2024-03-27 | Method: | ELECTRON MICROSCOPY (18.9 Å) | Cite: | Cryo-EM Structures of Centromeric Tri-nucleosomes Containing a Central CENP-A Nucleosome. Structure, 28, 2020
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6L4A
| H3-H3-H3 tri-nucleosome with the 22 base-pair linker DNA | Descriptor: | DNA (485-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | Authors: | Takizawa, Y, Ho, C.-H, Tachiwana, H, Matsunami, H, Ohi, M, Wolf, M, Kurumizaka, H. | Deposit date: | 2019-10-16 | Release date: | 2019-12-04 | Last modified: | 2024-03-27 | Method: | ELECTRON MICROSCOPY (12.3 Å) | Cite: | Cryo-EM Structures of Centromeric Tri-nucleosomes Containing a Central CENP-A Nucleosome. Structure, 28, 2020
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7VZ4
| Cryo-EM structure of human nucleosome core particle composed of the Widom 601L DNA sequence | Descriptor: | DNA (145-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | Authors: | Takizawa, Y, Ho, C.-H, Sato, S, Danev, R, Kurumizaka, H. | Deposit date: | 2021-11-15 | Release date: | 2023-05-17 | Last modified: | 2024-06-26 | Method: | ELECTRON MICROSCOPY (1.89 Å) | Cite: | Methods for High Resolution Cryo-EM Analyses of Nucleosomes To Be Published
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6CX1
| Cryo-EM structure of Seneca Valley Virus-Anthrax Toxin Receptor 1 complex | Descriptor: | Anthrax toxin receptor 1, Capsid protein VP1, Capsid protein VP2, ... | Authors: | Jayawardena, N, Burga, L, Easingwood, R, Takizawa, Y, Wolf, M, Bostina, M. | Deposit date: | 2018-04-02 | Release date: | 2018-10-31 | Last modified: | 2024-03-13 | Method: | ELECTRON MICROSCOPY (3.8 Å) | Cite: | Structural basis for anthrax toxin receptor 1 recognition by Seneca Valley Virus. Proc. Natl. Acad. Sci. U.S.A., 115, 2018
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2ZJB
| Crystal structure of the human Dmc1-M200V polymorphic variant | Descriptor: | Meiotic recombination protein DMC1/LIM15 homolog | Authors: | Hikiba, J, Hirota, K, Kagawa, W, Ikawa, S, Kinebuchi, T, Sakane, I, Takizawa, Y, Yokoyama, S, Mandon-Pepin, B, Nicolas, A, Shibata, T, Ohta, K, Kurumizaka, H. | Deposit date: | 2008-03-02 | Release date: | 2008-08-12 | Last modified: | 2023-11-01 | Method: | X-RAY DIFFRACTION (3.5 Å) | Cite: | Structural and functional analyses of the DMC1-M200V polymorphism found in the human population Nucleic Acids Res., 36, 2008
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8KB5
| Cryo-EM structure of the human nucleosome containing H3.8 | Descriptor: | DNA (145-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | Authors: | Hirai, H, Kujirai, T, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2023-08-03 | Release date: | 2023-10-18 | Last modified: | 2023-12-27 | Method: | ELECTRON MICROSCOPY (2.26133 Å) | Cite: | Cryo-EM and biochemical analyses of the nucleosome containing the human histone H3 variant H3.8. J.Biochem., 174, 2023
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8J92
| Cryo-EM structure of nucleosome containing Arabidopsis thaliana H2A.W | Descriptor: | DNA (169-MER), HTA6, HTB9, ... | Authors: | Osakabe, A, Takizawa, Y, Horikoshi, N, Hatazawa, S, Berger, F, Kurumizaka, H, Kakutani, T. | Deposit date: | 2023-05-02 | Release date: | 2024-07-03 | Last modified: | 2024-07-24 | Method: | ELECTRON MICROSCOPY (2.9 Å) | Cite: | Molecular and structural basis of the chromatin remodeling activity by Arabidopsis DDM1. Nat Commun, 15, 2024
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8J91
| Cryo-EM structure of nucleosome containing Arabidopsis thaliana histones | Descriptor: | DNA (169-MER), HTA13, Histone H2B.6, ... | Authors: | Osakabe, A, Takizawa, Y, Horikoshi, N, Hatazawa, S, Berger, F, Kurumizaka, H, Kakutani, T. | Deposit date: | 2023-05-02 | Release date: | 2024-07-03 | Last modified: | 2024-07-24 | Method: | ELECTRON MICROSCOPY (2.9 Å) | Cite: | Molecular and structural basis of the chromatin remodeling activity by Arabidopsis DDM1. Nat Commun, 15, 2024
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8J90
| Cryo-EM structure of DDM1-nucleosome complex | Descriptor: | ATP-dependent DNA helicase DDM1, DNA (169-MER), HTA6, ... | Authors: | Osakabe, A, Takizawa, Y, Horikoshi, N, Hatazawa, S, Berger, F, Kurumizaka, H, Kakutani, T. | Deposit date: | 2023-05-02 | Release date: | 2024-07-03 | Last modified: | 2024-07-24 | Method: | ELECTRON MICROSCOPY (4.71 Å) | Cite: | Molecular and structural basis of the chromatin remodeling activity by Arabidopsis DDM1. Nat Commun, 15, 2024
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8JNF
| The cryo-EM structure of the RAD51 filament bound to the nucleosome | Descriptor: | DNA (153-MER), DNA (156-MER), DNA repair protein RAD51 homolog 1, ... | Authors: | Shioi, T, Hatazawa, S, Ogasawara, M, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2023-06-06 | Release date: | 2024-03-27 | Last modified: | 2024-05-08 | Method: | ELECTRON MICROSCOPY (6.91 Å) | Cite: | Cryo-EM structures of RAD51 assembled on nucleosomes containing a DSB site. Nature, 628, 2024
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8JNE
| The cryo-EM structure of the decameric RAD51 ring bound to the nucleosome without the linker DNA binding | Descriptor: | DNA (153-MER), DNA (156-MER), DNA repair protein RAD51 homolog 1, ... | Authors: | Shioi, T, Hatazawa, S, Ogasawara, M, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2023-06-06 | Release date: | 2024-03-27 | Last modified: | 2024-05-08 | Method: | ELECTRON MICROSCOPY (4.68 Å) | Cite: | Cryo-EM structures of RAD51 assembled on nucleosomes containing a DSB site. Nature, 628, 2024
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8JND
| The cryo-EM structure of the nonameric RAD51 ring bound to the nucleosome with the linker DNA binding | Descriptor: | DNA (153-MER), DNA (156-MER), DNA repair protein RAD51 homolog 1, ... | Authors: | Shioi, T, Hatazawa, S, Ogasawara, M, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2023-06-06 | Release date: | 2024-03-27 | Last modified: | 2024-05-08 | Method: | ELECTRON MICROSCOPY (3.66 Å) | Cite: | Cryo-EM structures of RAD51 assembled on nucleosomes containing a DSB site. Nature, 628, 2024
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8YBK
| Cryo-EM structure of the human nucleosome containing the H3.1 E97K mutant | Descriptor: | DNA (145-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | Authors: | Kimura, T, Hirai, S, Kujirai, T, Ogasawara, M, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2024-02-14 | Release date: | 2024-07-24 | Last modified: | 2024-09-11 | Method: | ELECTRON MICROSCOPY (2.69 Å) | Cite: | Cryo-EM structure and biochemical analyses of the nucleosome containing the cancer-associated histone H3 mutation E97K. Genes Cells, 29, 2024
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8XBU
| The cryo-EM structure of the decameric RAD51 ring bound to the nucleosome with the linker DNA binding | Descriptor: | DNA (153-MER), DNA (156-MER), DNA repair protein RAD51 homolog 1, ... | Authors: | Shioi, T, Hatazawa, S, Ogasawara, M, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2023-12-07 | Release date: | 2024-03-27 | Last modified: | 2024-05-08 | Method: | ELECTRON MICROSCOPY (4.24 Å) | Cite: | Cryo-EM structures of RAD51 assembled on nucleosomes containing a DSB site. Nature, 628, 2024
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8XBY
| The cryo-EM structure of the RAD51 L1 and L2 loops bound to the linker DNA with the blunt end of the nucleosome | Descriptor: | DNA (5'-D(P*AP*AP*CP*GP*AP*AP*AP*AP*CP*GP*GP*CP*CP*AP*CP*CP*AP*CP*G)-3'), DNA (5'-D(P*CP*GP*TP*GP*GP*TP*GP*GP*CP*CP*GP*TP*TP*TP*TP*CP*GP*TP*T)-3'), DNA repair protein RAD51 homolog 1 | Authors: | Shioi, T, Hatazawa, S, Ogasawara, M, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2023-12-07 | Release date: | 2024-03-27 | Last modified: | 2024-05-08 | Method: | ELECTRON MICROSCOPY (7.8 Å) | Cite: | Cryo-EM structures of RAD51 assembled on nucleosomes containing a DSB site. Nature, 628, 2024
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8XBW
| The cryo-EM structure of the RAD51 N-terminal lobe domain bound to the histone H4 tail of the nucleosome | Descriptor: | DNA (5'-D(P*AP*CP*CP*GP*CP*TP*TP*AP*AP*AP*CP*GP*CP*AP*CP*GP*TP*A)-3'), DNA (5'-D(P*TP*AP*CP*GP*TP*GP*CP*GP*TP*TP*TP*AP*AP*GP*CP*GP*GP*T)-3'), DNA repair protein RAD51 homolog 1, ... | Authors: | Shioi, T, Hatazawa, S, Ogasawara, M, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2023-12-07 | Release date: | 2024-03-27 | Last modified: | 2024-05-08 | Method: | ELECTRON MICROSCOPY (2.89 Å) | Cite: | Cryo-EM structures of RAD51 assembled on nucleosomes containing a DSB site. Nature, 628, 2024
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8XBX
| The cryo-EM structure of the RAD51 L2 loop bound to the linker DNA with the blunt end of the nucleosome | Descriptor: | DNA (5'-D(P*AP*AP*CP*GP*AP*AP*AP*AP*CP*GP*GP*CP*CP*AP*CP*CP*AP*CP*G)-3'), DNA (5'-D(P*CP*GP*TP*GP*GP*TP*GP*GP*CP*CP*GP*TP*TP*TP*TP*CP*GP*TP*T)-3'), DNA repair protein RAD51 homolog 1 | Authors: | Shioi, T, Hatazawa, S, Ogasawara, M, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2023-12-07 | Release date: | 2024-03-27 | Last modified: | 2024-04-17 | Method: | ELECTRON MICROSCOPY (4.36 Å) | Cite: | Cryo-EM structures of RAD51 assembled on nucleosomes containing a DSB site. Nature, 628, 2024
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8XBV
| The cryo-EM structure of the RAD51 L1 and L2 loops bound to the linker DNA with the sticky end of the nucleosome | Descriptor: | DNA (5'-D(P*CP*GP*AP*AP*AP*AP*CP*GP*GP*CP*CP*AP*CP*CP*A)-3'), DNA (5'-D(P*TP*GP*GP*CP*CP*GP*TP*TP*TP*TP*CP*G)-3'), DNA repair protein RAD51 homolog 1 | Authors: | Shioi, T, Hatazawa, S, Ogasawara, M, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2023-12-07 | Release date: | 2024-03-27 | Last modified: | 2024-05-08 | Method: | ELECTRON MICROSCOPY (7.61 Å) | Cite: | Cryo-EM structures of RAD51 assembled on nucleosomes containing a DSB site. Nature, 628, 2024
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8XBT
| The cryo-EM structure of the octameric RAD51 ring bound to the nucleosome with the linker DNA binding | Descriptor: | DNA (153-MER), DNA (156-MER), DNA repair protein RAD51 homolog 1, ... | Authors: | Shioi, T, Hatazawa, S, Ogasawara, M, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2023-12-07 | Release date: | 2024-03-27 | Last modified: | 2024-05-08 | Method: | ELECTRON MICROSCOPY (4.12 Å) | Cite: | Cryo-EM structures of RAD51 assembled on nucleosomes containing a DSB site. Nature, 628, 2024
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8IHL
| Overlapping tri-nucleosome | Descriptor: | DNA (353-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | Authors: | Nishimura, M, Fujii, T, Tanaka, H, Maehara, K, Nozawa, K, Takizawa, Y, Ohkawa, Y, Kurumizaka, H. | Deposit date: | 2023-02-23 | Release date: | 2024-01-17 | Last modified: | 2024-01-24 | Method: | ELECTRON MICROSCOPY (7.64 Å) | Cite: | Genome-wide mapping and cryo-EM structural analyses of the overlapping tri-nucleosome composed of hexasome-hexasome-octasome moieties. Commun Biol, 7, 2024
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8YBJ
| Cryo-EM structure of human nucleosome core particle composed of the Widom 601 DNA sequence | Descriptor: | DNA (145-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | Authors: | Kimura, T, Hirai, S, Kujirai, T, Ogasawara, M, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2024-02-14 | Release date: | 2024-07-24 | Last modified: | 2024-09-11 | Method: | ELECTRON MICROSCOPY (2.38 Å) | Cite: | Cryo-EM structure and biochemical analyses of the nucleosome containing the cancer-associated histone H3 mutation E97K. Genes Cells, 29, 2024
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8JLB
| Cryo-EM structure of the 145 bp human nucleosome containing H3.2 C110A mutant | Descriptor: | DNA (145-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | Authors: | Oishi, T, Hatazawa, S, Kujirai, T, Kato, J, Kobayashi, Y, Ogasawara, M, Akatsu, M, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2023-06-02 | Release date: | 2023-10-04 | Last modified: | 2023-11-08 | Method: | ELECTRON MICROSCOPY (2.36 Å) | Cite: | Contributions of histone tail clipping and acetylation in nucleosome transcription by RNA polymerase II. Nucleic Acids Res., 51, 2023
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8JL9
| Cryo-EM structure of the human nucleosome with scFv | Descriptor: | DNA (193-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | Authors: | Oishi, T, Hatazawa, S, Kujirai, T, Kato, J, Kobayashi, Y, Ogasawara, M, Akatsu, M, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2023-06-02 | Release date: | 2023-10-04 | Last modified: | 2023-11-08 | Method: | ELECTRON MICROSCOPY (2.65 Å) | Cite: | Contributions of histone tail clipping and acetylation in nucleosome transcription by RNA polymerase II. Nucleic Acids Res., 51, 2023
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8JLD
| Cryo-EM structure of the 145 bp human nucleosome containing acetylated H3 tail | Descriptor: | DNA (145-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | Authors: | Oishi, T, Hatazawa, S, Kujirai, T, Kato, J, Kobayashi, Y, Ogasawara, M, Akatsu, M, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2023-06-02 | Release date: | 2023-10-04 | Last modified: | 2023-11-15 | Method: | ELECTRON MICROSCOPY (2.48 Å) | Cite: | Contributions of histone tail clipping and acetylation in nucleosome transcription by RNA polymerase II. Nucleic Acids Res., 51, 2023
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8JLA
| Cryo-EM structure of the human nucleosome lacking N-terminal region of H2A, H2B, H3, and H4 | Descriptor: | DNA (193-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... | Authors: | Oishi, T, Hatazawa, S, Kujirai, T, Kato, J, Kobayashi, Y, Ogasawara, M, Akatsu, M, Takizawa, Y, Kurumizaka, H. | Deposit date: | 2023-06-02 | Release date: | 2023-10-04 | Last modified: | 2023-11-08 | Method: | ELECTRON MICROSCOPY (3.44 Å) | Cite: | Contributions of histone tail clipping and acetylation in nucleosome transcription by RNA polymerase II. Nucleic Acids Res., 51, 2023
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