1ML9
 
 | | Structure of the Neurospora SET domain protein DIM-5, a histone lysine methyltransferase | | Descriptor: | Histone H3 methyltransferase DIM-5, UNKNOWN LIGAND, ZINC ION | | Authors: | Zhang, X, Tamaru, H, Khan, S.I, Horton, J.R, Keefe, L.J, Selker, E.U, Cheng, X. | | Deposit date: | 2002-08-30 | | Release date: | 2002-10-23 | | Last modified: | 2025-02-12 | | Method: | X-RAY DIFFRACTION (1.98 Å) | | Cite: | Structure of the Neurospora SET domain protein DIM-5,
a histone H3 lysine methyltransferase
Cell(Cambridge,Mass.), 111, 2002
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4EW0
 | | mouse MBD4 glycosylase domain in complex with a G:5hmU (5-hydroxymethyluracil) mismatch | | Descriptor: | 1,2-ETHANEDIOL, DNA (5'-D(*CP*CP*AP*TP*GP*(5HU)P*GP*CP*TP*GP*A)-3'), DNA (5'-D(*TP*CP*AP*GP*CP*GP*CP*AP*TP*GP*G)-3'), ... | | Authors: | Hashimoto, H, Zhang, X, Cheng, X. | | Deposit date: | 2012-04-26 | | Release date: | 2012-07-11 | | Last modified: | 2023-09-13 | | Method: | X-RAY DIFFRACTION (2.39 Å) | | Cite: | Excision of thymine and 5-hydroxymethyluracil by the MBD4 DNA glycosylase domain: structural basis and implications for active DNA demethylation.
Nucleic Acids Res., 40, 2012
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4EVV
 | | mouse MBD4 glycosylase domain in complex with a G:T mismatch | | Descriptor: | 1,2-ETHANEDIOL, DNA (5'-D(*CP*CP*AP*TP*GP*TP*GP*CP*TP*GP*A)-3'), DNA (5'-D(*TP*CP*AP*GP*CP*GP*CP*AP*TP*GP*G)-3'), ... | | Authors: | Hashimoto, H, Zhang, X, Cheng, X. | | Deposit date: | 2012-04-26 | | Release date: | 2012-07-11 | | Last modified: | 2023-09-13 | | Method: | X-RAY DIFFRACTION (2.39 Å) | | Cite: | Excision of thymine and 5-hydroxymethyluracil by the MBD4 DNA glycosylase domain: structural basis and implications for active DNA demethylation.
Nucleic Acids Res., 40, 2012
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1MR3
 | | Saccharomyces cerevisiae ADP-ribosylation Factor 2 (ScArf2) complexed with GDP-3'P at 1.6A resolution | | Descriptor: | 1,2-ETHANEDIOL, 1,3-PROPANDIOL, ADP-ribosylation factor 2, ... | | Authors: | Amor, J.-C, Horton, J.R, Zhu, X, Wang, Y, Sullards, C, Ringe, D, Cheng, X, Kahn, R.A. | | Deposit date: | 2002-09-17 | | Release date: | 2002-11-20 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | Structures of yeast ARF2 and ARL1: distinct roles for the N terminus in the structure and function of ARF family GTPases.
J.Biol.Chem., 276, 2001
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4EW4
 | | mouse MBD4 glycosylase domain in complex with DNA containing a ribose sugar | | Descriptor: | DNA (5'-D(*CP*CP*AP*TP*GP*(3DR)P*GP*CP*TP*GP*A)-3'), DNA (5'-D(*TP*CP*AP*GP*CP*GP*CP*AP*TP*GP*G)-3'), Methyl-CpG-binding domain protein 4, ... | | Authors: | Hashimoto, H, Zhang, X, Cheng, X. | | Deposit date: | 2012-04-26 | | Release date: | 2012-07-11 | | Last modified: | 2023-09-13 | | Method: | X-RAY DIFFRACTION (2.791 Å) | | Cite: | Excision of thymine and 5-hydroxymethyluracil by the MBD4 DNA glycosylase domain: structural basis and implications for active DNA demethylation.
Nucleic Acids Res., 40, 2012
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4F0Q
 | | MspJI Restriction Endonuclease - P21 Form | | Descriptor: | MAGNESIUM ION, Restriction endonuclease | | Authors: | Horton, J.R, Mabuchi, M, Cohen-Karni, D, Zhang, X, Griggs, R, Samaranayake, M, Roberts, R.J, Zheng, Y, Cheng, X. | | Deposit date: | 2012-05-04 | | Release date: | 2012-08-08 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2.046 Å) | | Cite: | Structure and cleavage activity of the tetrameric MspJI DNA modification-dependent restriction endonuclease.
Nucleic Acids Res., 40, 2012
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4F0P
 | | MspJI Restriction Endonuclease - P31 Form | | Descriptor: | MAGNESIUM ION, Restriction endonuclease | | Authors: | Horton, J.R, Mabuchi, M, Cohen-Karni, D, Zhang, X, Griggs, R, Samaranayake, M, Roberts, R.J, Zheng, Y, Cheng, X. | | Deposit date: | 2012-05-04 | | Release date: | 2012-08-08 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2.79 Å) | | Cite: | Structure and cleavage activity of the tetrameric MspJI DNA modification-dependent restriction endonuclease.
Nucleic Acids Res., 40, 2012
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4DYD
 | | Substrate-directed dual catalysis of dicarbonyl compounds by diketoreductase | | Descriptor: | Diketoreductase, GLYCEROL, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, ... | | Authors: | Lu, M, White, M.A, Huang, Y, Wu, X, Liu, N, Cheng, X, Chen, Y. | | Deposit date: | 2012-02-28 | | Release date: | 2012-11-14 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (1.95 Å) | | Cite: | Dual catalysis mode for the dicarbonyl reduction catalyzed by diketoreductase
Chem.Commun.(Camb.), 48, 2012
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8E3D
 | | ZBTB7A Zinc Finger Domain Bound to DNA Duplex Containing CAST sequence (#11) | | Descriptor: | 1,2-ETHANEDIOL, DNA (5'-D(*AP*TP*TP*TP*GP*GP*GP*GP*AP*GP*GP*GP*GP*TP*CP*TP*TP*TP*AP*AP*CP*C)-3'), DNA (5'-D(P*GP*GP*TP*AP*AP*AP*AP*GP*AP*CP*CP*CP*CP*TP*CP*CP*CP*CP*AP*AP*AP*T)-3'), ... | | Authors: | Horton, J.R, Ren, R, Cheng, X. | | Deposit date: | 2022-08-17 | | Release date: | 2023-02-08 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (2.62 Å) | | Cite: | Structural basis for transcription factor ZBTB7A recognition of DNA and effects of ZBTB7A somatic mutations that occur in human acute myeloid leukemia.
J.Biol.Chem., 299, 2023
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8E3E
 | | ZBTB7A Zinc Finger Domain Bound to DNA Duplex Containing CAST sequence (#10) | | Descriptor: | DNA (5'-D(*CP*TP*TP*TP*GP*GP*GP*GP*AP*GP*GP*GP*GP*TP*CP*TP*TP*TP*TP*AP*C)-3'), DNA (5'-D(*GP*GP*TP*AP*AP*AP*AP*GP*AP*CP*CP*CP*CP*TP*CP*CP*CP*CP*AP*AP*A)-3'), ZINC ION, ... | | Authors: | Horton, J.R, Ren, R, Cheng, X. | | Deposit date: | 2022-08-17 | | Release date: | 2023-02-08 | | Last modified: | 2024-10-09 | | Method: | X-RAY DIFFRACTION (2.99 Å) | | Cite: | Structural basis for transcription factor ZBTB7A recognition of DNA and effects of ZBTB7A somatic mutations that occur in human acute myeloid leukemia.
J.Biol.Chem., 299, 2023
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1NGN
 | | Mismatch repair in methylated DNA. Structure of the mismatch-specific thymine glycosylase domain of methyl-CpG-binding protein MBD4 | | Descriptor: | methyl-CpG binding protein MBD4 | | Authors: | Wu, P, Qiu, C, Sohail, A, Zhang, X, Bhagwat, A.S, Cheng, X. | | Deposit date: | 2002-12-17 | | Release date: | 2003-03-18 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Mismatch repair in methylated DNA. Structure and activity of the mismatch-specific thymine glycosylase domain of methyl-CpG-binding protein MBD4
J.Biol.Chem., 278, 2003
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8F8Y
 | | PHF2 (PHD+JMJ) in Complex with VRK1 N-Terminal Peptide | | Descriptor: | 1,2-ETHANEDIOL, Lysine-specific demethylase PHF2, SULFATE ION, ... | | Authors: | Horton, J.R, Cheng, X. | | Deposit date: | 2022-11-22 | | Release date: | 2023-01-18 | | Last modified: | 2023-02-08 | | Method: | X-RAY DIFFRACTION (3.06 Å) | | Cite: | A complete methyl-lysine binding aromatic cage constructed by two domains of PHF2.
J.Biol.Chem., 299, 2022
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8F8Z
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4FNC
 | | Human TDG in a post-reactive complex with 5-hydroxymethyluracil (5hmU) | | Descriptor: | 5-HYDROXYMETHYL URACIL, DNA (28-MER), DNA (29-MER), ... | | Authors: | Hashimoto, H, Hong, S, Bhagwat, A.S, Zhang, X, Cheng, X. | | Deposit date: | 2012-06-19 | | Release date: | 2012-09-19 | | Last modified: | 2023-09-13 | | Method: | X-RAY DIFFRACTION (2.493 Å) | | Cite: | Excision of 5-hydroxymethyluracil and 5-carboxylcytosine by the thymine DNA glycosylase domain: its structural basis and implications for active DNA demethylation.
Nucleic Acids Res., 40, 2012
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5CG9
 | | NgTET1 in complex with 5mC DNA in space group P3221 | | Descriptor: | 1,2-ETHANEDIOL, 2-OXOGLUTARIC ACID, DNA (5'-D(*TP*GP*TP*CP*AP*GP*(5CM)P*GP*CP*AP*TP*GP*G)-3'), ... | | Authors: | Hashimoto, H, Pais, J.E, Dai, N, Zhang, X, Zheng, Y, Cheng, X. | | Deposit date: | 2015-07-09 | | Release date: | 2015-09-09 | | Last modified: | 2023-09-27 | | Method: | X-RAY DIFFRACTION (2.693 Å) | | Cite: | Structure of Naegleria Tet-like dioxygenase (NgTet1) in complexes with a reaction intermediate 5-hydroxymethylcytosine DNA.
Nucleic Acids Res., 43, 2015
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5CG8
 | | NgTET1 in complex with 5hmC DNA | | Descriptor: | 2-OXOGLUTARIC ACID, DNA (5'-D(*AP*GP*AP*AP*TP*TP*CP*CP*GP*TP*TP*CP*CP*A)-3'), DNA (5'-D(*TP*GP*GP*AP*AP*(5HC)P*GP*GP*AP*AP*TP*TP*CP*T)-3'), ... | | Authors: | Hashimoto, H, Pais, J.E, Dai, N, Zhang, X, Zheng, Y, Cheng, X. | | Deposit date: | 2015-07-09 | | Release date: | 2015-09-09 | | Last modified: | 2023-09-27 | | Method: | X-RAY DIFFRACTION (2.702 Å) | | Cite: | Structure of Naegleria Tet-like dioxygenase (NgTet1) in complexes with a reaction intermediate 5-hydroxymethylcytosine DNA.
Nucleic Acids Res., 43, 2015
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1ORI
 | | Structure of the predominant protein arginine methyltransferase PRMT1 | | Descriptor: | Protein arginine N-methyltransferase 1, S-ADENOSYL-L-HOMOCYSTEINE, UNKNOWN LIGAND | | Authors: | Zhang, X, Cheng, X. | | Deposit date: | 2003-03-13 | | Release date: | 2003-05-27 | | Last modified: | 2023-08-16 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Structure of the Predominant Protein Arginine Methyltransferase PRMT1 and Analysis of its Binding to Substrate Peptides
Structure, 11, 2003
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4E13
 | | Substrate-directed dual catalysis of dicarbonyl compounds by diketoreductase | | Descriptor: | Diketoreductase, GLYCEROL, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, ... | | Authors: | Lu, M, White, M.A, Huang, Y, Wu, X, Liu, N, Cheng, X, Chen, Y. | | Deposit date: | 2012-03-05 | | Release date: | 2012-11-14 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.08 Å) | | Cite: | Dual catalysis mode for the dicarbonyl reduction catalyzed by diketoreductase
Chem.Commun.(Camb.), 48, 2012
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1OR8
 | | Structure of the Predominant protein arginine methyltransferase PRMT1 | | Descriptor: | GLYCEROL, Protein arginine N-methyltransferase 1, S-ADENOSYL-L-HOMOCYSTEINE, ... | | Authors: | Zhang, X, Cheng, X. | | Deposit date: | 2003-03-12 | | Release date: | 2003-08-26 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (2.35 Å) | | Cite: | Structure of the Predominant Protein Arginine Methyltransferase PRMT1 and Analysis of Its Binding to Substrate Peptides
Structure, 11, 2003
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1ORH
 | | Structure of the Predominant Protein Arginine Methyltransferase PRMT1 | | Descriptor: | GLYCEROL, Protein arginine N-methyltransferase 1, S-ADENOSYL-L-HOMOCYSTEINE, ... | | Authors: | Zhang, X, Cheng, X. | | Deposit date: | 2003-03-13 | | Release date: | 2003-08-26 | | Last modified: | 2023-08-16 | | Method: | X-RAY DIFFRACTION (2.64 Å) | | Cite: | Structure of the Predominant Protein Arginine Methyltransferase PRMT1 and Analysis of Its Binding to Substrate Peptides
Structure, 11, 2003
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4GZN
 | | Mouse ZFP57 zinc fingers in complex with methylated DNA | | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, ACETATE ION, CALCIUM ION, ... | | Authors: | Liu, Y, Zhang, X, Cheng, X. | | Deposit date: | 2012-09-06 | | Release date: | 2012-10-17 | | Last modified: | 2024-02-28 | | Method: | X-RAY DIFFRACTION (0.99 Å) | | Cite: | An atomic model of Zfp57 recognition of CpG methylation within a specific DNA sequence.
Genes Dev., 26, 2012
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2ZO1
 | | Mouse NP95 SRA domain DNA specific complex 2 | | Descriptor: | 1,2-ETHANEDIOL, DNA (5'-D(*DGP*DTP*DCP*DAP*DGP*(5CM)P*DGP*DCP*DAP*DAP*DTP*DGP*DG)-3'), DNA (5'-D(*DTP*DCP*DCP*DAP*DTP*DGP*DCP*DGP*DCP*DTP*DGP*DAP*DC)-3'), ... | | Authors: | Hashimoto, H, Horton, J.R, Cheng, X. | | Deposit date: | 2008-05-05 | | Release date: | 2008-09-09 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.96 Å) | | Cite: | The SRA domain of UHRF1 flips 5-methylcytosine out of the DNA helix
Nature, 455, 2008
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2ZO0
 | | mouse NP95 SRA domain DNA specific complex 1 | | Descriptor: | DNA (5'-D(*DGP*DTP*DCP*DAP*DGP*(5CM)P*DGP*DCP*DAP*DAP*DTP*DGP*DG)-3'), DNA (5'-D(*DTP*DCP*DCP*DAP*DTP*DGP*DCP*DGP*DCP*DTP*DGP*DAP*DC)-3'), E3 ubiquitin-protein ligase UHRF1 | | Authors: | Hashimoto, H, Horton, J.R, Cheng, X. | | Deposit date: | 2008-05-05 | | Release date: | 2008-09-09 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.19 Å) | | Cite: | The SRA domain of UHRF1 flips 5-methylcytosine out of the DNA helix
Nature, 455, 2008
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3PU8
 | | PHF2 Jumonji-NOG-Fe(II) complex | | Descriptor: | 1,2-ETHANEDIOL, CHLORIDE ION, FE (III) ION, ... | | Authors: | Horton, J.R, Upadhyay, A.K, Hashimoto, H, Zhang, X, Cheng, X. | | Deposit date: | 2010-12-03 | | Release date: | 2011-01-26 | | Last modified: | 2023-09-06 | | Method: | X-RAY DIFFRACTION (1.943 Å) | | Cite: | Structural basis for human PHF2 Jumonji domain interaction with metal ions.
J.Mol.Biol., 406, 2011
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3PUS
 | | PHF2 Jumonji-NOG-Ni(II) | | Descriptor: | 1,2-ETHANEDIOL, CHLORIDE ION, N-OXALYLGLYCINE, ... | | Authors: | Horton, J.R, Upadhyay, A.K, Hashimoto, H, Zhang, X, Cheng, X. | | Deposit date: | 2010-12-06 | | Release date: | 2011-01-26 | | Last modified: | 2023-09-06 | | Method: | X-RAY DIFFRACTION (2.08 Å) | | Cite: | Structural basis for human PHF2 Jumonji domain interaction with metal ions.
J.Mol.Biol., 406, 2011
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