1KHC
 
 | | Crystal Structure of the PWWP Domain of Mammalian DNA Methyltransferase Dnmt3b | | Descriptor: | DNA cytosine-5 methyltransferase 3B2, UNKNOWN ATOM OR ION | | Authors: | Qiu, C, Sawada, K, Zhang, X, Cheng, X. | | Deposit date: | 2001-11-29 | | Release date: | 2002-02-27 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | The PWWP domain of mammalian DNA methyltransferase Dnmt3b defines a new family of DNA-binding folds.
Nat.Struct.Biol., 9, 2002
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6R3E
 | | Human DNMT3B PWWP domain in complex with triisopropanolamine | | Descriptor: | DNA (cytosine-5)-methyltransferase 3B,DNA (cytosine-5)-methyltransferase 3B, SULFATE ION, Triisopropanolamine | | Authors: | Rondelet, G, Dal Maso, T, Wouters, J. | | Deposit date: | 2019-03-20 | | Release date: | 2020-04-08 | | Last modified: | 2024-01-24 | | Method: | X-RAY DIFFRACTION (2.269 Å) | | Cite: | Targeting PWWP domain of DNMT3B for epigenetic cancer therapy: identification and structural characterization of potential protein-protein interaction inhibitors
To be published
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7O45
 | | Crystal structure of ADD domain of the human DNMT3B methyltransferase | | Descriptor: | BROMIDE ION, Isoform 6 of DNA (cytosine-5)-methyltransferase 3B, ZINC ION | | Authors: | Boyko, K.M, Nikolaeva, A.Y, Bonchuk, A.N, Georgiev, P.G, Popov, V.O. | | Deposit date: | 2021-04-05 | | Release date: | 2022-04-13 | | Last modified: | 2024-01-31 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Structure of the DNMT3B ADD domain suggests the absence of a DNMT3A-like autoinhibitory mechanism.
Biochem.Biophys.Res.Commun., 619, 2022
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6PA7
 | | The cryo-EM structure of the human DNMT3A2-DNMT3B3 complex bound to nucleosome. | | Descriptor: | CHLORIDE ION, DNA (167-MER), DNA (cytosine-5)-methyltransferase 3A, ... | | Authors: | Xu, T.H, Liu, M, Zhou, X.E, Liang, G, Zhao, G, Xu, H.E, Melcher, K, Jones, P.A. | | Deposit date: | 2019-06-11 | | Release date: | 2020-06-17 | | Last modified: | 2024-03-20 | | Method: | ELECTRON MICROSCOPY (2.94 Å) | | Cite: | Structure of nucleosome-bound DNA methyltransferases DNMT3A and DNMT3B.
Nature, 586, 2020
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5CIU
 | | Structural basis of the recognition of H3K36me3 by DNMT3B PWWP domain | | Descriptor: | DNA (cytosine-5)-methyltransferase 3B, GLYCEROL, Histone H3.2 | | Authors: | Rondelet, G, DAL MASO, T, Willems, L, Wouters, J. | | Deposit date: | 2015-07-13 | | Release date: | 2016-03-30 | | Last modified: | 2024-01-10 | | Method: | X-RAY DIFFRACTION (2.24 Å) | | Cite: | Structural basis for recognition of histone H3K36me3 nucleosome by human de novo DNA methyltransferases 3A and 3B.
J.Struct.Biol., 194, 2016
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7X9D
 | | DNMT3B in complex with harmine | | Descriptor: | 7-METHOXY-1-METHYL-9H-BETA-CARBOLINE, DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3B | | Authors: | Cho, C.-C, Yuan, H.S. | | Deposit date: | 2022-03-15 | | Release date: | 2023-03-15 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (3.08 Å) | | Cite: | Mechanistic Insights into Harmine-Mediated Inhibition of Human DNA Methyltransferases and Prostate Cancer Cell Growth.
Acs Chem.Biol., 18, 2023
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3FLG
 | | The PWWP domain of Human DNA (cytosine-5-)-methyltransferase 3 beta | | Descriptor: | DNA (cytosine-5)-methyltransferase 3B | | Authors: | Amaya, M.F, Zeng, H, MacKenzie, F, Weigelt, J, Sundstrom, M, Arrowsmith, C.H, Edwards, A.M, Botchkarev, A, Min, J, Wu, H, Structural Genomics Consortium (SGC) | | Deposit date: | 2008-12-18 | | Release date: | 2009-03-31 | | Last modified: | 2023-09-06 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Crystal Structure of the PWWP domain of Human DNA (cytosine-5-)-methyltransferase 3 beta
To be Published
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3QKJ
 | | The PWWP domain of human DNA (CYTOSINE-5-)-METHYLTRANSFERASE 3 BETA in complex with a bis-tris molecule | | Descriptor: | 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, DNA cytosine-5 methyltransferase 3 beta isoform 6 variant, SULFATE ION | | Authors: | Zeng, H, Amaya, M.F, Mackenzie, F, Weigelt, J, Sundstrom, M, Arrowsmith, C.H, Edwards, A.M, Botchkarev, A, Min, J, Wu, H, Structural Genomics Consortium (SGC) | | Deposit date: | 2011-02-01 | | Release date: | 2011-03-09 | | Last modified: | 2024-02-21 | | Method: | X-RAY DIFFRACTION (2.04 Å) | | Cite: | Structural and Histone Binding Ability Characterizations of Human PWWP Domains.
Plos One, 6, 2011
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7V0E
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8XEE
 | | Human DNMT3B mutant-R823G | | Descriptor: | DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3B, S-ADENOSYL-L-HOMOCYSTEINE | | Authors: | Cho, C.-C, Yuan, H.S. | | Deposit date: | 2023-12-11 | | Release date: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (3.03 Å) | | Cite: | Molecular mechanisms for DNA methylation defects induced by ICF syndrome-linked mutations in DNMT3B.
Protein Sci., 33, 2024
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6U8X
 | | Crystal structure of DNMT3B-DNMT3L in complex with CpApG DNA | | Descriptor: | CpApG DNA (25-MER), DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3B, ... | | Authors: | Gao, L, Song, J. | | Deposit date: | 2019-09-06 | | Release date: | 2020-06-10 | | Last modified: | 2024-12-25 | | Method: | X-RAY DIFFRACTION (2.95063877 Å) | | Cite: | Comprehensive structure-function characterization of DNMT3B and DNMT3A reveals distinctive de novo DNA methylation mechanisms.
Nat Commun, 11, 2020
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6U91
 | | Crystal structure of DNMT3B(Q772R)-DNMT3L in complex with CpGpT DNA | | Descriptor: | CpGpT DNA (25-MER), DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3B, ... | | Authors: | Gao, L, Song, J. | | Deposit date: | 2019-09-06 | | Release date: | 2020-06-10 | | Last modified: | 2024-12-25 | | Method: | X-RAY DIFFRACTION (2.99998879 Å) | | Cite: | Comprehensive structure-function characterization of DNMT3B and DNMT3A reveals distinctive de novo DNA methylation mechanisms
To Be Published
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8EIH
 | | Cryo-EM structure of human DNMT3B homo-tetramer (form I) | | Descriptor: | DNA (cytosine-5)-methyltransferase 3B, S-ADENOSYL-L-HOMOCYSTEINE, ZINC ION | | Authors: | Lu, J.W, Song, J.K. | | Deposit date: | 2022-09-15 | | Release date: | 2023-09-20 | | Last modified: | 2024-04-03 | | Method: | ELECTRON MICROSCOPY (3.04 Å) | | Cite: | Structural basis for the allosteric regulation and dynamic assembly of DNMT3B.
Nucleic Acids Res., 51, 2023
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8EIK
 | | Cryo-EM structure of human DNMT3B homo-hexamer | | Descriptor: | DNA (cytosine-5)-methyltransferase 3B, S-ADENOSYL-L-HOMOCYSTEINE, ZINC ION | | Authors: | Lu, J.W, Song, J.K. | | Deposit date: | 2022-09-15 | | Release date: | 2023-09-20 | | Last modified: | 2023-12-20 | | Method: | ELECTRON MICROSCOPY (3.19 Å) | | Cite: | Structural basis for the allosteric regulation and dynamic assembly of DNMT3B.
Nucleic Acids Res., 51, 2023
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8EIJ
 | | Cryo-EM structure of human DNMT3B homo-trimer | | Descriptor: | DNA (cytosine-5)-methyltransferase 3B, S-ADENOSYL-L-HOMOCYSTEINE, ZINC ION | | Authors: | Lu, J.W, Song, J.K. | | Deposit date: | 2022-09-15 | | Release date: | 2023-09-20 | | Last modified: | 2023-12-20 | | Method: | ELECTRON MICROSCOPY (3.34 Å) | | Cite: | Structural basis for the allosteric regulation and dynamic assembly of DNMT3B.
Nucleic Acids Res., 51, 2023
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8EII
 | | Cryo-EM structure of human DNMT3B homo-tetramer (form II) | | Descriptor: | DNA (cytosine-5)-methyltransferase 3B, S-ADENOSYL-L-HOMOCYSTEINE, ZINC ION | | Authors: | Lu, J.W, Song, J.K. | | Deposit date: | 2022-09-15 | | Release date: | 2023-09-20 | | Last modified: | 2023-12-20 | | Method: | ELECTRON MICROSCOPY (3.12 Å) | | Cite: | Structural basis for the allosteric regulation and dynamic assembly of DNMT3B.
Nucleic Acids Res., 51, 2023
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6U8P
 | | Crystal structure of DNMT3B-DNMT3L in complex with CpGpA DNA | | Descriptor: | CpGpA DNA (25-MER), DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3B, ... | | Authors: | Gao, L, Song, J. | | Deposit date: | 2019-09-05 | | Release date: | 2020-06-10 | | Last modified: | 2024-12-25 | | Method: | X-RAY DIFFRACTION (3.05 Å) | | Cite: | Comprehensive structure-function characterization of DNMT3B and DNMT3A reveals distinctive de novo DNA methylation mechanisms.
Nat Commun, 11, 2020
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6U90
 | | Crystal structure of DNMT3B(N779A)-DNMT3L in complex with CpGpT DNA | | Descriptor: | CpGpT DNA (25-MER), DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3B, ... | | Authors: | Gao, L, Song, J. | | Deposit date: | 2019-09-06 | | Release date: | 2020-06-10 | | Last modified: | 2024-12-25 | | Method: | X-RAY DIFFRACTION (3.00081754 Å) | | Cite: | Comprehensive structure-function characterization of DNMT3B and DNMT3A reveals distinctive de novo DNA methylation mechanisms
To Be Published
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6U8V
 | | Crystal structure of DNMT3B-DNMT3L in complex with CpGpT DNA | | Descriptor: | CpGpT DNA (25-MER), DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3B, ... | | Authors: | Gao, L, Zhang, Z.M, Song, J. | | Deposit date: | 2019-09-06 | | Release date: | 2020-06-10 | | Last modified: | 2024-12-25 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Comprehensive structure-function characterization of DNMT3B and DNMT3A reveals distinctive de novo DNA methylation mechanisms.
Nat Commun, 11, 2020
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6U8W
 | | Crystal structure of DNMT3B(K777A)-DNMT3L in complex with CpGpT DNA | | Descriptor: | CpGpT DNA (25-MER), DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3B, ... | | Authors: | Gao, L, Zhang, Z.M, Song, J. | | Deposit date: | 2019-09-06 | | Release date: | 2020-06-10 | | Last modified: | 2024-12-25 | | Method: | X-RAY DIFFRACTION (2.94891548 Å) | | Cite: | Comprehensive structure-function characterization of DNMT3B and DNMT3A reveals distinctive de novo DNA methylation mechanisms.
Nat Commun, 11, 2020
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6KDL
 | | Crystal structure of human DNMT3B-DNMT3L complex (I) | | Descriptor: | DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3B, S-ADENOSYL-L-HOMOCYSTEINE | | Authors: | Lin, C.-C, Chen, Y.-P, Yang, W.-Z, Shen, C.-K, Yuan, H.S. | | Deposit date: | 2019-07-02 | | Release date: | 2020-02-19 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (3.274 Å) | | Cite: | Structural insights into CpG-specific DNA methylation by human DNA methyltransferase 3B.
Nucleic Acids Res., 48, 2020
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6KDP
 | | Crystal structure of human DNMT3B-DNMT3L complex (II) | | Descriptor: | DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3B, FORMIC ACID, ... | | Authors: | Lin, C.-C, Chen, Y.-P, Yang, W.-Z, Shen, C.-K, Yuan, H.S. | | Deposit date: | 2019-07-02 | | Release date: | 2020-02-19 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.93 Å) | | Cite: | Structural insights into CpG-specific DNA methylation by human DNA methyltransferase 3B.
Nucleic Acids Res., 48, 2020
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6KDB
 | | Crystal structure of human DNMT3B-DNMT3L in complex with DNA containing CpGpT site | | Descriptor: | DNA (25-MER), DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3B, ... | | Authors: | Lin, C.-C, Chen, Y.-P, Yang, W.-Z, Shen, C.-K, Yuan, H.S. | | Deposit date: | 2019-07-01 | | Release date: | 2020-02-19 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.862 Å) | | Cite: | Structural insights into CpG-specific DNA methylation by human DNA methyltransferase 3B.
Nucleic Acids Res., 48, 2020
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6KDT
 | | Crystal structure of human DNMT3B (Q772R)-DNMT3L complex | | Descriptor: | DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3B, FORMIC ACID, ... | | Authors: | Lin, C.-C, Chen, Y.-P, Yang, W.-Z, Shen, C.-K, Yuan, H.S. | | Deposit date: | 2019-07-02 | | Release date: | 2020-02-19 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.87 Å) | | Cite: | Structural insights into CpG-specific DNA methylation by human DNA methyltransferase 3B.
Nucleic Acids Res., 48, 2020
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6KDA
 | | Crystal structure of human DNMT3B-DNMT3L in complex with DNA containing CpGpG site | | Descriptor: | DNA (25-MER), DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3B, ... | | Authors: | Lin, C.-C, Chen, Y.-P, Yang, W.-Z, Shen, C.-K, Yuan, H.S. | | Deposit date: | 2019-07-01 | | Release date: | 2020-02-19 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.909 Å) | | Cite: | Structural insights into CpG-specific DNA methylation by human DNA methyltransferase 3B.
Nucleic Acids Res., 48, 2020
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