PDB: 249 resultsInfo pagesStatus searchChemie searchBIRD

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3O36	Crystal structure of TRIM24 PHD-Bromo complexed with H4(14-19)K16ac peptide Descriptor: Histone H4, Transcription intermediary factor 1-alpha, ZINC ION Authors: Wang, Z, Patel, D.J. Deposit date: 2010-07-23 Release date: 2010-12-15 Last modified: 2011-07-13 Method: X-RAY DIFFRACTION (1.7 Å) Cite: TRIM24 links a non-canonical histone signature to breast cancer. Nature, 468, 2010
3O33	Crystal structure of TRIM24 PHD-Bromo in the free state Descriptor: Transcription intermediary factor 1-alpha, ZINC ION Authors: Wang, Z, Patel, D.J. Deposit date: 2010-07-23 Release date: 2010-12-15 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (2 Å) Cite: TRIM24 links a non-canonical histone signature to breast cancer. Nature, 468, 2010
3O34	Crystal structure of TRIM24 PHD-Bromo complexed with H3(13-32)K23ac peptide Descriptor: BIOTIN, Histone H3.1, Transcription intermediary factor 1-alpha, ... Authors: Wang, Z, Patel, D.J. Deposit date: 2010-07-23 Release date: 2010-12-15 Last modified: 2011-07-13 Method: X-RAY DIFFRACTION (1.9 Å) Cite: TRIM24 links a non-canonical histone signature to breast cancer. Nature, 468, 2010
3U5O	Crystal structure of the complex of TRIM33 PHD-Bromo and H3(1-22)K9me3K14acK18ac histone peptide Descriptor: E3 ubiquitin-protein ligase TRIM33, Histone H3.1, ZINC ION Authors: Wang, Z, Patel, D.J. Deposit date: 2011-10-11 Release date: 2012-01-18 Last modified: 2023-12-06 Method: X-RAY DIFFRACTION (2.7 Å) Cite: A poised chromatin platform for TGF-beta access to master regulators Cell(Cambridge,Mass.), 147, 2011
3U5M	Crystal structure of TRIM33 PHD-Bromo in the free state Descriptor: CALCIUM ION, E3 ubiquitin-protein ligase TRIM33, ZINC ION Authors: Wang, Z, Patel, D.J. Deposit date: 2011-10-11 Release date: 2012-01-18 Last modified: 2023-09-13 Method: X-RAY DIFFRACTION (3.08 Å) Cite: A poised chromatin platform for TGF-beta access to master regulators Cell(Cambridge,Mass.), 147, 2011
2RI7	Crystal structure of PHD finger-linker-bromodomain Y17E mutant from human BPTF in the H3(1-9)K4ME2 bound state Descriptor: GLYCEROL, ISOPROPYL ALCOHOL, Nucleosome-remodeling factor subunit BPTF, ... Authors: Li, H, Patel, D.J. Deposit date: 2007-10-10 Release date: 2007-12-11 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (1.45 Å) Cite: Structural Basis for Lower Lysine Methylation State-Specific Readout by MBT Repeats of L3MBTL1 and an Engineered PHD Finger. Mol.Cell, 28, 2007
7VVZ	NuA4 bound to the nucleosome Descriptor: ADENOSINE-5'-TRIPHOSPHATE, Actin, Actin-related protein 4, ... Authors: Qu, K, Chen, Z. Deposit date: 2021-11-09 Release date: 2022-08-10 Last modified: 2022-11-16 Method: ELECTRON MICROSCOPY (8.8 Å) Cite: Structure of the NuA4 acetyltransferase complex bound to the nucleosome. Nature, 610, 2022
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
7YI4	Cryo-EM structure of Rpd3S complex bound to H3K36me3 nucleosome in close state Descriptor: Chromatin modification-related protein EAF3, Histone H2A, Histone H2B 1.1, ... Authors: Li, H.T, Yan, C.Y, Guan, H.P, Wang, P. Deposit date: 2022-07-14 Release date: 2023-06-14 Last modified: 2023-08-30 Method: ELECTRON MICROSCOPY (3.96 Å) Cite: Diverse modes of H3K36me3-guided nucleosomal deacetylation by Rpd3S. Nature, 620, 2023
7VDV	The overall structure of human chromatin remodeling PBAF-nucleosome complex Descriptor: ADENOSINE-5'-DIPHOSPHATE, AT-rich interactive domain-containing protein 2,AT-rich interactive domain-containing protein 2, Actin, ... Authors: Chen, Z.C, Chen, K.J, Yuan, J.J. Deposit date: 2021-09-07 Release date: 2022-05-18 Method: ELECTRON MICROSCOPY (3.4 Å) Cite: Structure of human chromatin-remodelling PBAF complex bound to a nucleosome. Nature, 605, 2022
7Y8R	The nucleosome-bound human PBAF complex Descriptor: ACTB protein (Fragment), ADENOSINE-5'-DIPHOSPHATE, AT-rich interactive domain-containing protein 2, ... Authors: Wang, L, Yu, J, Yu, Z, Wang, Q, He, S, Xu, Y. Deposit date: 2022-06-24 Release date: 2022-12-07 Last modified: 2022-12-21 Method: ELECTRON MICROSCOPY (4.4 Å) Cite: Structure of nucleosome-bound human PBAF complex. Nat Commun, 13, 2022
7YI5	Cryo-EM structure of Rpd3S complex bound to H3K36me3 nucleosome in loose state Descriptor: Chromatin modification-related protein EAF3, Histone H2A, Histone H2B 1.1, ... Authors: Li, H.T, Yan, C.Y, Guan, H.P, Wang, P. Deposit date: 2022-07-14 Release date: 2023-06-14 Last modified: 2023-08-30 Method: ELECTRON MICROSCOPY (3.96 Å) Cite: Diverse modes of H3K36me3-guided nucleosomal deacetylation by Rpd3S. Nature, 620, 2023
8IFG	Cryo-EM structure of the Clr6S (Clr6-HDAC) complex from S. pombe Descriptor: Chromatin modification-related protein eaf3, Cph1, Cph2, ... Authors: Zhang, H.Q, Wang, X, Wang, Y.N, Liu, S.M, Zhang, Y, Xu, K, Ji, L.T, Kornberg, R.D. Deposit date: 2023-02-17 Release date: 2024-01-03 Method: ELECTRON MICROSCOPY (3.2 Å) Cite: Class I histone deacetylase complex: Structure and functional correlates. Proc Natl Acad Sci U S A, 120, 2023
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 Method: ELECTRON MICROSCOPY (3.72 Å) Cite: Structural basis for nucleosome binding and catalysis by the yeast Rpd3S/HDAC holoenzyme. Cell Res., 33, 2023
8JHO	Cryo-EM structure of the histone deacetylase complex Rpd3S in complex with di-nucleosome Descriptor: Chromatin modification-related protein EAF3, Di-nucleosome template foward, Di-nucleosome template reverse, ... Authors: Wang, H. Deposit date: 2023-05-25 Release date: 2023-09-27 Last modified: 2023-12-27 Method: ELECTRON MICROSCOPY (7.6 Å) Cite: Structure of histone deacetylase complex Rpd3S bound to nucleosome. Nat.Struct.Mol.Biol., 30, 2023
8KD3	Rpd3S in complex with nucleosome with H3K36MLA modification, H3K9Q mutation and 187bp DNA Descriptor: 187bp DNA, Chromatin modification-related protein EAF3, Histone H2A, ... Authors: Dong, S, Li, H, Wang, M, Rasheed, N, Zou, B, Gao, X, Guan, J, Li, W, Zhang, J, Wang, C, Zhou, N, Shi, X, Li, M, Zhou, M, Huang, J, Li, H, Zhang, Y, Wong, K.H, Zhang, X, Chao, W.C.H, He, J. Deposit date: 2023-08-09 Release date: 2023-09-13 Last modified: 2023-10-11 Method: ELECTRON MICROSCOPY (2.9 Å) Cite: Structural basis of nucleosome deacetylation and DNA linker tightening by Rpd3S histone deacetylase complex. Cell Res., 33, 2023
8KD2	Rpd3S in complex with 187bp nucleosome Descriptor: 187bp DNA, Chromatin modification-related protein EAF3, Histone H2A, ... Authors: Dong, S, Li, H, Wang, M, Rasheed, N, Zou, B, Gao, X, Guan, J, Li, W, Zhang, J, Wang, C, Zhou, N, Shi, X, Li, M, Zhou, M, Huang, J, Li, H, Zhang, Y, Wong, K.H, Zhang, X, Chao, W.C.H, He, J. Deposit date: 2023-08-09 Release date: 2023-09-13 Last modified: 2023-10-11 Method: ELECTRON MICROSCOPY (3.02 Å) Cite: Structural basis of nucleosome deacetylation and DNA linker tightening by Rpd3S histone deacetylase complex. Cell Res., 33, 2023
8KD5	Rpd3S in complex with nucleosome with H3K36MLA modification and 187bp DNA, class2 Descriptor: 187bp DNA, Chromatin modification-related protein EAF3, Histone H2A, ... Authors: Dong, S, Li, H, Wang, M, Rasheed, N, Zou, B, Gao, X, Guan, J, Li, W, Zhang, J, Wang, C, Zhou, N, Shi, X, Li, M, Zhou, M, Huang, J, Li, H, Zhang, Y, Wong, K.H, Chang, X, Chao, W.C.H, He, J. Deposit date: 2023-08-09 Release date: 2023-09-13 Last modified: 2023-10-11 Method: ELECTRON MICROSCOPY (2.9 Å) Cite: Structural basis of nucleosome deacetylation and DNA linker tightening by Rpd3S histone deacetylase complex. Cell Res., 33, 2023
8KD4	Rpd3S in complex with nucleosome with H3K36MLA modification and 187bp DNA, class1 Descriptor: 187bp DNA, Chromatin modification-related protein EAF3, Histone H2A, ... Authors: Dong, S, Li, H, Wang, M, Rasheed, N, Zou, B, Gao, X, Guan, J, Li, W, Zhang, J, Wang, C, Zhou, N, Shi, X, Li, M, Zhou, M, Huang, J, Li, H, Zhang, Y, Wong, K.H, Zhang, X, Chao, W.C.H, He, J. Deposit date: 2023-08-09 Release date: 2023-09-13 Last modified: 2023-10-11 Method: ELECTRON MICROSCOPY (2.93 Å) Cite: Structural basis of nucleosome deacetylation and DNA linker tightening by Rpd3S histone deacetylase complex. Cell Res., 33, 2023
8KD6	Rpd3S in complex with nucleosome with H3K36MLA modification and 187bp DNA, class3 Descriptor: 187bp DNA, Chromatin modification-related protein EAF3, Histone H2A, ... Authors: Dong, S, Li, H, Wang, M, Rasheed, N, Zou, B, Gao, X, Guan, J, Li, W, Zhang, J, Wang, C, Zhou, N, Shi, X, Li, M, Zhou, M, Huang, J, Li, H, Zhang, Y, Wong, K.H, Zhang, X, Chao, W.C.H, He, J. Deposit date: 2023-08-09 Release date: 2023-09-13 Last modified: 2023-10-11 Method: ELECTRON MICROSCOPY (3.07 Å) Cite: Structural basis of nucleosome deacetylation and DNA linker tightening by Rpd3S histone deacetylase complex. Cell Res., 33, 2023
8KD7	Rpd3S in complex with nucleosome with H3K36MLA modification and 167bp DNA Descriptor: 167bp DNA, Chromatin modification-related protein EAF3, Histone H2A, ... Authors: Dong, S, Li, H, Wang, M, Rasheed, N, Zou, B, Gao, X, Guan, J, Li, W, Zhang, J, Wang, C, Zhou, N, Shi, X, Li, M, Zhou, M, Huang, J, Li, H, Zhang, Y, Wong, K.H, Chang, X, Chao, W.C.H, He, J. Deposit date: 2023-08-09 Release date: 2023-09-13 Last modified: 2023-10-11 Method: ELECTRON MICROSCOPY (3.09 Å) Cite: Structural basis of nucleosome deacetylation and DNA linker tightening by Rpd3S histone deacetylase complex. Cell Res., 33, 2023
5Y1Z	Crystal structure of ZMYND8 PHD-BROMO-PWWP tandem in complex with Drebrin ADF-H domain Descriptor: Drebrin, GLYCEROL, Protein kinase C-binding protein 1, ... Authors: Yao, N, Li, J, Liu, H, Wan, J, Liu, W, Zhang, M. Deposit date: 2017-07-22 Release date: 2017-10-25 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (2.676 Å) Cite: The Structure of the ZMYND8/Drebrin Complex Suggests a Cytoplasmic Sequestering Mechanism of ZMYND8 by Drebrin Structure, 25, 2017
2KU7	Solution structure of MLL1 PHD3-Cyp33 RRM chimeric protein Descriptor: MLL1 PHD3-Cyp33 RRM chimeric protein Authors: Song, J, Wang, Z, Patel, D. Deposit date: 2010-02-12 Release date: 2010-07-07 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: Pro isomerization in MLL1 PHD3-bromo cassette connects H3K4me readout to CyP33 and HDAC-mediated repression. Cell(Cambridge,Mass.), 141, 2010
4YAB	Crystal structure of TRIM24 PHD-bromodomain complexed with 1-methyl-5-(2-methyl-1 3-thiazol-4-yl)-2 3-dihydro-1H-indol-2-one (1) Descriptor: 1-methyl-5-(2-methyl-1,3-thiazol-4-yl)-1,3-dihydro-2H-indol-2-one, SULFATE ION, Transcription intermediary factor 1-alpha, ... Authors: Poncet-Montange, G, Palmer, W, Jones, P. Deposit date: 2015-02-17 Release date: 2015-06-24 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (1.9 Å) Cite: Structure-Guided Design of IACS-9571, a Selective High-Affinity Dual TRIM24-BRPF1 Bromodomain Inhibitor. J.Med.Chem., 59, 2016
4YAD	Crystal structure of TRIM24 PHD-bromodomain complexed with 2,4-dimethoxy-N-(1-methyl-2-oxo-1,2,3,4-tetrahydroquinolin-6-yl)benzene-1-sulfonamide (3b) Descriptor: 2,4-dimethoxy-N-(1-methyl-2-oxo-1,2,3,4-tetrahydroquinolin-6-yl)benzenesulfonamide, CHLORIDE ION, GLYCEROL, ... Authors: Poncet-Montange, G, Palmer, W, Jones, P. Deposit date: 2015-02-17 Release date: 2015-06-24 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (1.73 Å) Cite: Structure-Guided Design of IACS-9571, a Selective High-Affinity Dual TRIM24-BRPF1 Bromodomain Inhibitor. J.Med.Chem., 59, 2016

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