PDB: 29 resultsInfo pagesStatus searchChemie searchBIRD

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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
2MOE	Solution structure of MBD4 methyl-cytosine binding domain bound to methylated DNA Descriptor: DNA (5'-D(*GP*AP*GP*CP*(5CM)P*GP*AP*TP*CP*C)-3'), DNA (5'-D(*GP*GP*AP*TP*(5CM)P*GP*GP*CP*TP*C)-3'), Methyl-CpG-binding domain protein 4 Authors: Williams, D.C, Walavalkar, N.M. Deposit date: 2014-04-24 Release date: 2014-09-10 Last modified: 2024-05-15 Method: SOLUTION NMR Cite: Solution structure and intramolecular exchange of methyl-cytosine binding domain protein 4 (MBD4) on DNA suggests a mechanism to scan for mCpG/TpG mismatches. Nucleic Acids Res., 42, 2015
7KZ0	Human MBD4 glycosylase domain bound to DNA containing substrate analog 2'-deoxy-pseudouridine Descriptor: DNA (5'-D(*CP*CP*AP*GP*CP*GP*(P2U)P*GP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*CP*GP*CP*GP*CP*TP*GP*G)-3'), GLYCEROL, ... Authors: Pidugu, L.S, Pozharski, E, Drohat, A.C. Deposit date: 2020-12-09 Release date: 2021-11-10 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (1.57 Å) Cite: Structural Insights into the Mechanism of Base Excision by MBD4. J.Mol.Biol., 433, 2021
7KZG	Human MBD4 glycosylase domain bound to DNA containing oxacarbenium-ion analog 1-aza-2'-deoxyribose Descriptor: 1,2-ETHANEDIOL, CHLORIDE ION, DI(HYDROXYETHYL)ETHER, ... Authors: Pidugu, L.S, Pozharski, E, Drohat, A.C. Deposit date: 2020-12-10 Release date: 2021-11-10 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (1.68 Å) Cite: Structural Insights into the Mechanism of Base Excision by MBD4. J.Mol.Biol., 433, 2021
7KZ1	Human MBD4 glycosylase domain bound to DNA containing an abasic site Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*CP*CP*AP*GP*CP*GP*(ORP)P*GP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*CP*GP*CP*GP*CP*TP*GP*G)-3'), ... Authors: Pidugu, L.S, Bright, H, Pozharski, E, Drohat, A.C. Deposit date: 2020-12-09 Release date: 2021-11-10 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (1.62 Å) Cite: Structural Insights into the Mechanism of Base Excision by MBD4. J.Mol.Biol., 433, 2021
4E9E	Structure of the glycosylase domain of MBD4 Descriptor: Methyl-CpG-binding domain protein 4 Authors: Morera, S, Vigouroux, A. Deposit date: 2012-03-21 Release date: 2012-08-08 Last modified: 2023-09-13 Method: X-RAY DIFFRACTION (1.9 Å) Cite: Biochemical and structural characterization of the glycosylase domain of MBD4 bound to thymine and 5-hydroxymethyuracil-containing DNA. Nucleic Acids Res., 40, 2012
4E9H	structure of glycosylase domain of MBD4 bound to 5hmU containing DNA Descriptor: DNA (5'-D(*CP*CP*AP*GP*CP*GP*(5HU)P*GP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*CP*GP*CP*GP*CP*TP*GP*G)-3'), Methyl-CpG-binding domain protein 4 Authors: Morera, S, Vigouroux, A. Deposit date: 2012-03-21 Release date: 2012-08-08 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (3 Å) Cite: Biochemical and structural characterization of the glycosylase domain of MBD4 bound to thymine and 5-hydroxymethyuracil-containing DNA. Nucleic Acids Res., 40, 2012
4EA5	Structure of the glycoslyase domain of MBD4 bound to a 5hmU containing DNA Descriptor: DNA (5'-D(*CP*CP*AP*GP*CP*GP*(5HU)*GP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*CP*GP*CP*GP*CP*TP*GP*G)-3'), Methyl-CpG-binding domain protein 4 Authors: Morera, S, Vigouroux, A. Deposit date: 2012-03-22 Release date: 2012-08-08 Last modified: 2023-09-13 Method: X-RAY DIFFRACTION (2.14 Å) Cite: Biochemical and structural characterization of the glycosylase domain of MBD4 bound to thymine and 5-hydroxymethyuracil-containing DNA. Nucleic Acids Res., 40, 2012
4E9G	structure of the glycosylase domain of MBD4 bound to thymine containing DNA Descriptor: DNA (5'-D(*CP*CP*AP*GP*CP*GP*TP*GP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*CP*GP*CP*GP*CP*TP*GP*G)-3'), Methyl-CpG-binding domain protein 4 Authors: Morera, S, Vigouroux, A. Deposit date: 2012-03-21 Release date: 2012-08-08 Last modified: 2023-09-13 Method: X-RAY DIFFRACTION (2.35 Å) Cite: Biochemical and structural characterization of the glycosylase domain of MBD4 bound to thymine and 5-hydroxymethyuracil-containing DNA. Nucleic Acids Res., 40, 2012
4E9F	Structure of the glycosylase domain of MBD4 bound to AP site containing DNA Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*CP*CP*AP*GP*CP*GP*(3DR)P*GP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*CP*GP*CP*GP*CP*TP*GP*G)-3'), ... Authors: Morera, S, Vigouroux, A. Deposit date: 2012-03-21 Release date: 2012-08-08 Last modified: 2023-09-13 Method: X-RAY DIFFRACTION (1.79 Å) Cite: Biochemical and structural characterization of the glycosylase domain of MBD4 bound to thymine and 5-hydroxymethyuracil-containing DNA. Nucleic Acids Res., 40, 2012
4EA4	Structure of the glycosylase domain of MBD4 bound to 5hmU-containing DNA Descriptor: DNA (5'-D(*CP*CP*AP*GP*CP*GP*(5HU)P*GP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*CP*GP*CP*GP*CP*TP*GP*G)-3'), Methyl-CpG-binding domain protein 4 Authors: Morera, S, Vigouroux, A. Deposit date: 2012-03-22 Release date: 2012-08-08 Last modified: 2023-09-13 Method: X-RAY DIFFRACTION (2 Å) Cite: Biochemical and structural characterization of the glycosylase domain of MBD4 bound to thymine and 5-hydroxymethyuracil-containing DNA. Nucleic Acids Res., 40, 2012
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
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
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
3IHO	The C-terminal glycosylase domain of human MBD4 Descriptor: Methyl-CpG-binding domain protein 4 Authors: Amaya, M.F, Xu, C, Bian, C.B, Bountra, C, Weigelt, J, Arrowsmith, C.H, Edwards, A.M, Bochkarev, A, Min, J, Structural Genomics Consortium (SGC) Deposit date: 2009-07-30 Release date: 2009-08-25 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (2.7 Å) Cite: The C-terminal glycosylase domain of human MBD4 To be Published
5CHZ	Structure of wild-type human MBD4 bound to a G:T mismatch Descriptor: 12-mer DNA(G), 5-mer DNA, 7-mer DNA, ... Authors: Ouzon-Shubeita, H, Lin, Y.-L, Lee, S. Deposit date: 2015-07-10 Release date: 2016-07-20 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (1.83 Å) Cite: Structure of wild-type human MBD4 bound to a G:T mismatch To Be Published
4LG7	Crystal structure MBD4 MBD domain in complex with methylated CpG DNA Descriptor: DNA (5'-D(*GP*CP*CP*AP*AP*(5CM)P*GP*TP*TP*GP*GP*C)-3'), Methyl-CpG-binding domain protein 4, UNKNOWN ATOM OR ION Authors: Xu, C, Tempel, W, Wernimont, A.K, Bountra, C, Arrowsmith, C.H, Edwards, A.M, Min, J, Structural Genomics Consortium (SGC) Deposit date: 2013-06-27 Release date: 2013-07-17 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Crystal structure MBD4 MBD domain in complex with methylated CpG DNA To be Published
6VJW	Crystal structure of WT hMBD4 complexed with T:G mismatch DNA Descriptor: DNA (5'-D(*CP*CP*AP*GP*CP*GP*(ORP)P*GP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*CP*GP*CP*GP*CP*TP*GP*G)-3'), Methyl-CpG-binding domain protein 4 Authors: Jung, H, Lee, S. Deposit date: 2020-01-17 Release date: 2021-01-27 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (2.02 Å) Cite: Catalytic mechanism of the mismatch-specific DNA glycosylase methyl-CpG-binding domain 4. Biochem.J., 477, 2020
3VXV	Crystal structure of methyl CpG Binding Domain of MBD4 in complex with the 5mCG/TG sequence Descriptor: 1,2-ETHANEDIOL, ACETATE ION, DNA (5'-D(*GP*TP*CP*AP*CP*TP*AP*CP*(5CM)P*GP*GP*AP*CP*A)-3'), ... Authors: Otani, J, Arita, K, Kato, T, Kinoshita, M, Ariyoshi, M, Shirakawa, M. Deposit date: 2012-09-21 Release date: 2013-01-16 Last modified: 2013-08-14 Method: X-RAY DIFFRACTION (2 Å) Cite: Structural basis of the versatile DNA recognition ability of the methyl-CpG binding domain of methyl-CpG binding domain protein 4 J.Biol.Chem., 288, 2013
3VYB	Crystal structure of methyl CpG binding domain of MBD4 in complex with the 5mCG/hmCG sequence Descriptor: 1,2-ETHANEDIOL, ACETATE ION, DNA (5'-D(*GP*TP*CP*(5HC)P*GP*GP*TP*AP*GP*TP*GP*AP*CP*T)-3'), ... Authors: Otani, J, Arita, K, Kato, T, Kinoshita, M, Ariyoshi, M, Shirakawa, M. Deposit date: 2012-09-22 Release date: 2013-01-16 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Structural basis of the versatile DNA recognition ability of the methyl-CpG binding domain of methyl-CpG binding domain protein 4 J.Biol.Chem., 288, 2013
3VXX	Crystal structure of methyl CpG binding domain of MBD4 in complex with the 5mCG/5mCG sequence Descriptor: 1,2-ETHANEDIOL, ACETATE ION, DNA (5'-D(*GP*TP*CP*(5CM)P*GP*GP*TP*AP*GP*TP*GP*AP*CP*T)-3'), ... Authors: Otani, J, Arita, K, Kato, T, Kinoshita, M, Ariyoshi, M, Shirakawa, M. Deposit date: 2012-09-21 Release date: 2013-01-16 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (2.204 Å) Cite: Structural basis of the versatile DNA recognition ability of the methyl-CpG binding domain of methyl-CpG binding domain protein 4 J.Biol.Chem., 288, 2013
3VYQ	Crystal structure of the methyl CpG Binding Domain of MBD4 in complex with the 5mCG/TG sequence in space group P1 Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*AP*CP*AP*TP*CP*(5CM)P*GP*GP*TP*GP*A)-3'), DNA (5'-D(*TP*CP*AP*CP*TP*GP*GP*AP*TP*GP*T)-3'), ... Authors: Otani, J, Arita, K, Kato, T, Kinoshita, M, Ariyoshi, M, Shirakawa, M. Deposit date: 2012-10-02 Release date: 2013-01-16 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (2.525 Å) Cite: Structural basis of the versatile DNA recognition ability of the methyl-CpG binding domain of methyl-CpG binding domain protein 4 J.Biol.Chem., 288, 2013
4OFH	Structural basis for thymine glycosylase activity on T:O6-methylG mismatch by methyl-CpG binding domain protein 4: Implications for roles of Arg468 in mismatch recognition and catalysis Descriptor: 12-mer DNA(O6MeG), 12-mer DNA(T), MAGNESIUM ION, ... Authors: Ouzon-Shubeita, H, Lin, Y.-L, Lee, S. Deposit date: 2014-01-14 Release date: 2015-04-22 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.22 Å) Cite: Structure of MBD4 bound to O6MeG:T mispair DNA To be Published
4OFE	Structural basis for thymine glycosylase activity on T:O6-methylG mismatch by methyl-CpG binding domain protein 4: Implications for roles of Arg468 in mismatch recognition and catalysis Descriptor: 12-mer DNA(G), 12-mer DNA(T), MAGNESIUM ION, ... Authors: Ouzon-Shubeita, H, Lin, Y.-L, Lee, S. Deposit date: 2014-01-14 Release date: 2015-04-22 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.15 Å) Cite: Structure of R468K/D560N MBD4 bound to G:T mispair DNA To be Published
4OFA	Structural basis for thymine glycosylase activity on T:O6-methylG mismatch by methyl-CpG binding domain protein 4: Implications for roles of Arg468 in mismatch recognition and catalysis Descriptor: 12-mer DNA(G), 12-mer DNA(T), MAGNESIUM ION, ... Authors: Ouzon-Shubeita, H, Lin, Y.-L, Lee, S. Deposit date: 2014-01-14 Release date: 2015-04-22 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (1.55 Å) Cite: Structure of MBD4 bound to G:T mispair DNA To be Published

 

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