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PDB: 461 results

6L9Z
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BU of 6l9z by Molmil
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
3AFA
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BU of 3afa by Molmil
The human nucleosome structure
Descriptor: 146-MER DNA, CHLORIDE ION, Histone H2A type 1-B/E, ...
Authors:Tachiwana, H, Kagawa, W, Osakabe, A, Koichiro, K, Shiga, T, Kimura, H, Kurumizaka, H.
Deposit date:2010-02-24
Release date:2010-05-26
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Structural basis of instability of the nucleosome containing a testis-specific histone variant, human H3T
Proc.Natl.Acad.Sci.USA, 107, 2010
6JR0
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BU of 6jr0 by Molmil
Crystal structure of the human nucleosome phased with 12 selenium atoms
Descriptor: CHLORIDE ION, DNA (146-MER), Histone H2A type 1-B/E, ...
Authors:Saotome, M, Horikoshi, N, Urano, K, Kujirai, T, Yuzurihara, H, Kurumizaka, H, Kagawa, W.
Deposit date:2019-04-02
Release date:2019-10-02
Last modified:2019-10-23
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Structure determination of the nucleosome core particle by selenium SAD phasing.
Acta Crystallogr D Struct Biol, 75, 2019
7LBO
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BU of 7lbo by Molmil
Crystal structure of human Survivin bound to histone H3 T3phK4me1 peptide
Descriptor: Baculoviral IAP repeat-containing protein 5, ZINC ION, histone H3 T3phK4me1 peptide
Authors:Niedzialkowska, E, Minor, W, Stukenberg, P.T.
Deposit date:2021-01-08
Release date:2022-01-12
Last modified:2023-10-18
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Tip60 acetylation of histone H3K4 temporally controls chromosome passenger complex localization.
Mol.Biol.Cell, 33, 2022
2CV5
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BU of 2cv5 by Molmil
Crystal structure of human nucleosome core particle
Descriptor: CHLORIDE ION, DNA (146-MER), Histone H2A.a, ...
Authors:Tsunaka, Y, Kajimura, N, Tate, S, Morikawa, K.
Deposit date:2005-05-31
Release date:2005-06-28
Last modified:2024-03-13
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Alteration of the nucleosomal DNA path in the crystal structure of a human nucleosome core particle
Nucleic Acids Res., 33, 2005
6PAG
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BU of 6pag by Molmil
Killer cell immunoglobulin-like receptor 2DL3 in complex with HLA-C*07:02
Descriptor: ARG-TYR-ARG-PRO-GLY-THR-VAL-ALA-LEU, Beta-2-microglobulin, HLA class I histocompatibility antigen, ...
Authors:Moradi, S, Rossjohn, J, Vivian, J.P.
Deposit date:2019-06-11
Release date:2020-12-16
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.501 Å)
Cite:Structural plasticity of KIR2DL2 and KIR2DL3 enables altered docking geometries atop HLA-C.
Nat Commun, 12, 2021
8Q3M
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BU of 8q3m by Molmil
Structure of Nucleosome Core with a Bound Kaposi Sarcoma Associated Herpesvirus LANA Peptide Having a Methionine to Ornithine Substitution
Descriptor: DNA (145-MER), Histone H2A type 1-B/E, Histone H2B type 1-K, ...
Authors:De Falco, L, Batchelor, L.K, Dyson, P.J, Davey, C.A.
Deposit date:2023-08-04
Release date:2024-03-27
Method:X-RAY DIFFRACTION (2.503 Å)
Cite:Viral peptide conjugates for metal-warhead delivery to chromatin.
Rsc Adv, 14, 2024
8GUK
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BU of 8guk by Molmil
Human nucleosome core particle (free form)
Descriptor: DNA (147-mer), Histone H2A type 1, Histone H2B type 1-J, ...
Authors:Onishi, S, Sato, K, Nishizawa, T, Nureki, O, Ogata, K, Sengoku, T.
Deposit date:2022-09-12
Release date:2023-09-20
Last modified:2024-04-03
Method:ELECTRON MICROSCOPY (2.51 Å)
Cite:Structure of the human Bre1 complex bound to the nucleosome.
Nat Commun, 15, 2024
8OX0
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BU of 8ox0 by Molmil
Structure of apo telomeric nucleosome
Descriptor: Histone H2A type 1-C, Histone H2B type 1-C/E/F/G/I, Histone H3.1, ...
Authors:Hu, H, van Roon, A.M.M, Ghanim, G.E, Ahsan, B, Oluwole, A, Peak-Chew, S, Robinson, C.V, Nguyen, T.H.D.
Deposit date:2023-04-28
Release date:2023-08-30
Last modified:2023-09-06
Method:ELECTRON MICROSCOPY (2.52 Å)
Cite:Structural basis of telomeric nucleosome recognition by shelterin factor TRF1.
Sci Adv, 9, 2023
4EZH
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BU of 4ezh by Molmil
the crystal structure of KDM6B bound with H3K27me3 peptide
Descriptor: Lysine-specific demethylase 6B, N-OXALYLGLYCINE, NICKEL (II) ION, ...
Authors:Cheng, Z.J, Patel, D.J.
Deposit date:2012-05-02
Release date:2012-08-08
Last modified:2017-08-09
Method:X-RAY DIFFRACTION (2.52 Å)
Cite:A selective jumonji H3K27 demethylase inhibitor modulates the proinflammatory macrophage response.
Nature, 488, 2012
6MIM
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BU of 6mim by Molmil
Crystal structure of AF9 YEATS domain Y78W mutant in complex with histone H3K9cr
Descriptor: Histone H3K9cr, Protein AF-9
Authors:Vann, K.R, Klein, B.J, Kutateladze, T.G.
Deposit date:2018-09-19
Release date:2018-11-14
Last modified:2023-11-15
Method:X-RAY DIFFRACTION (2.525 Å)
Cite:Structural insights into the pi-pi-pi stacking mechanism and DNA-binding activity of the YEATS domain.
Nat Commun, 9, 2018
5Y2F
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BU of 5y2f by Molmil
Human SIRT6 in complex with allosteric activator MDL-801
Descriptor: 5-[[3,5-bis(chloranyl)phenyl]sulfonylamino]-2-[(5-bromanyl-4-fluoranyl-2-methyl-phenyl)sulfamoyl]benzoic acid, 9-mer peptide QTARKSTGG, DI(HYDROXYETHYL)ETHER, ...
Authors:Zhang, J, Huang, Z, Song, K.
Deposit date:2017-07-25
Release date:2018-11-07
Last modified:2018-11-28
Method:X-RAY DIFFRACTION (2.53 Å)
Cite:Identification of a cellularly active SIRT6 allosteric activator.
Nat. Chem. Biol., 14, 2018
4YHP
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BU of 4yhp by Molmil
Crystal structure of 309M3-B Fab in complex with H3K9me3 peptide
Descriptor: Fab Heavy Chain, Fab Light Chain, H3K9me3 peptide
Authors:Hattori, T, Dementieva, I.S, Montano, S.P, Koide, S.
Deposit date:2015-02-27
Release date:2016-02-10
Last modified:2023-09-27
Method:X-RAY DIFFRACTION (2.53 Å)
Cite:Antigen clasping by two antigen-binding sites of an exceptionally specific antibody for histone methylation.
Proc.Natl.Acad.Sci.USA, 113, 2016
5H6Q
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BU of 5h6q by Molmil
Crystal structure of LSD1-CoREST in complex with peptide 11
Descriptor: FLAVIN-ADENINE DINUCLEOTIDE, GLYCEROL, Lysine-specific histone demethylase 1A, ...
Authors:Kikuchi, M, Amano, Y, Sato, S, Yokoyama, S, Umezawa, N, Higuchi, T, Umehara, T.
Deposit date:2016-11-14
Release date:2017-04-12
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.53 Å)
Cite:Development and crystallographic evaluation of histone H3 peptide with N-terminal serine substitution as a potent inhibitor of lysine-specific demethylase 1.
Bioorg. Med. Chem., 25, 2017
6YIH
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BU of 6yih by Molmil
Structure of Chromosomal Passenger Complex (CPC) bound to phosphorylated Histone 3 peptide at 2.6 A.
Descriptor: Baculoviral IAP repeat-containing protein 5, Borealin, Histone H3.1, ...
Authors:Serena, M, Elliott, P.R, Barr, F.A.
Deposit date:2020-04-01
Release date:2020-05-13
Last modified:2024-01-24
Method:X-RAY DIFFRACTION (2.55 Å)
Cite:Molecular basis of MKLP2-dependent Aurora B transport from chromatin to the anaphase central spindle.
J.Cell Biol., 219, 2020
5ZBX
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BU of 5zbx by Molmil
The crystal structure of the nucleosome containing histone H3.1 CATD(V76Q, K77D)
Descriptor: CHLORIDE ION, DNA (146-MER), Histone H2A type 1-B/E, ...
Authors:Arimura, Y, Takagi, H, Kurumizaka, H.
Deposit date:2018-02-13
Release date:2019-02-13
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.58 Å)
Cite:The CENP-A centromere targeting domain facilitates H4K20 monomethylation in the nucleosome by structural polymorphism.
Nat Commun, 10, 2019
1PEG
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BU of 1peg by Molmil
Structural basis for the product specificity of histone lysine methyltransferases
Descriptor: Histone H3, S-ADENOSYL-L-HOMOCYSTEINE, ZINC ION, ...
Authors:Zhang, X, Yang, Z, Khan, S.I, Horton, J.R, Tamaru, H, Selker, E.U, Cheng, X.
Deposit date:2003-05-21
Release date:2003-08-05
Last modified:2023-08-16
Method:X-RAY DIFFRACTION (2.59 Å)
Cite:Structural basis for the product specificity of histone lysine methyltransferases
Mol.Cell, 12, 2003
5XF3
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BU of 5xf3 by Molmil
Nucleosome core particle with an adduct of a binuclear RAPTA (Ru-arene-phosphaadamantane) compound having a 1,2-diphenylethylenediamine linker (R,R-configuration)
Descriptor: (1R,2R)-1,2-diphenylethane-1,2-diamine, DNA (145-MER), Histone H2A type 1-B/E, ...
Authors:Ma, Z, Adhireksan, Z, Murray, B.S, Dyson, P.J, Davey, C.A.
Deposit date:2017-04-07
Release date:2017-10-11
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Nucleosome acidic patch-targeting binuclear ruthenium compounds induce aberrant chromatin condensation
Nat Commun, 8, 2017
3MP1
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BU of 3mp1 by Molmil
Complex structure of Sgf29 and trimethylated H3K4
Descriptor: ACETATE ION, H3K4me3 peptide, Maltose-binding periplasmic protein,LINKER,SAGA-associated factor 29, ...
Authors:Li, J, Ruan, J, Wu, M, Xue, X, Zang, J.
Deposit date:2010-04-24
Release date:2011-05-04
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Sgf29 binds histone H3K4me2/3 and is required for SAGA complex recruitment and histone H3 acetylation
Embo J., 30, 2011
8SYP
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BU of 8syp by Molmil
Genomic CX3CR1 nucleosome
Descriptor: DNA (162-MER), Histone H2A type 2-C, Histone H2B type 2-E, ...
Authors:Lian, T, Guan, R, Bai, Y.
Deposit date:2023-05-25
Release date:2023-11-01
Last modified:2024-05-01
Method:ELECTRON MICROSCOPY (2.6 Å)
Cite:Structural mechanism of synergistic targeting of the CX3CR1 nucleosome by PU.1 and C/EBP alpha.
Nat.Struct.Mol.Biol., 31, 2024
6V2H
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BU of 6v2h by Molmil
Crystal structure of CDYL2 in complex with H3tK27me3
Descriptor: Chromodomain Y-like protein 2, H3tK27me3, NICKEL (II) ION, ...
Authors:Dong, C, Tempel, W, Walker, J.R, Bountra, C, Arrowsmith, C.H, Edwards, A.M, Min, J, Structural Genomics Consortium (SGC)
Deposit date:2019-11-22
Release date:2019-12-25
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Structural Basis for the Binding Selectivity of Human CDY Chromodomains.
Cell Chem Biol, 27, 2020
6LE9
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BU of 6le9 by Molmil
The Human Telomeric Nucleosome Displays Distinct Structural and Dynamic Properties
Descriptor: Histone H2A type 1-B/E, Histone H2B type 1-K, Histone H3.1, ...
Authors:Soman, A, Liew, C.W, Teo, H.L, Berezhnoy, N, Korolev, N, Rhodes, D, Nordenskiold, L.
Deposit date:2019-11-24
Release date:2020-04-22
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:The human telomeric nucleosome displays distinct structural and dynamic properties.
Nucleic Acids Res., 48, 2020
6L9H
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BU of 6l9h by Molmil
The Human Telomeric Nucleosome Displays Distinct Structural and Dynamic Properties
Descriptor: Histone H2A type 1-B/E, Histone H2B type 1-K, Histone H3.1, ...
Authors:Soman, A, Liew, C.W, Teo, H.L, Berezhnoy, N, Korolev, N, Rhodes, D, Nordenskiold, L.
Deposit date:2019-11-10
Release date:2020-04-22
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:The human telomeric nucleosome displays distinct structural and dynamic properties.
Nucleic Acids Res., 48, 2020
6V2K
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BU of 6v2k by Molmil
The nucleosome structure after H2A-H2B exchange
Descriptor: CHLORIDE ION, DNA (146-MER), Histone H2A, ...
Authors:Arimura, Y, Hirano, R, Kurumizaka, H.
Deposit date:2019-11-24
Release date:2020-11-25
Last modified:2023-10-11
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Histone variant H2A.B-H2B dimers are spontaneously exchanged with canonical H2A-H2B in the nucleosome.
Commun Biol, 4, 2021
2C1J
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BU of 2c1j by Molmil
Molecular basis for the recognition of phosphorylated and phosphoacetylated histone H3 by 14-3-3
Descriptor: 14-3-3 PROTEIN ZETA/DELTA, HISTONE H3 ACETYLPHOSPHOPEPTIDE
Authors:Welburn, J.P.I, Macdonald, N, Noble, M.E.M, Nguyen, A, Yaffe, M.B, Clynes, D, Moggs, J.G, Orphanides, G, Thomson, S, Edmunds, J.W, Clayton, A.L, Endicott, J.A, Mahadevan, L.C.
Deposit date:2005-09-15
Release date:2005-11-02
Last modified:2023-12-13
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:Molecular Basis for the Recognition of Phosphorylated and Phosphoacetylated Histone H3 by 14-3-3.
Mol.Cell, 20, 2005

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