PDB: 45817 件ウェブページステータス検索Chemie searchBIRD

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6W8B	Structure of DNMT3A in complex with CGA DNA 分子名称: CGA DNA (25-MER), DNA (cytosine-5)-methyltransferase 3-like, DNA (cytosine-5)-methyltransferase 3A, ... 著者 Anteneh, H, Song, J. 登録日 2020-03-20 公開日 2020-04-15 最終更新日 2023-10-18 実験手法 X-RAY DIFFRACTION (2.4 Å) 主引用文献 Structural basis for impairment of DNA methylation by the DNMT3A R882H mutation. Nat Commun, 11, 2020
1D96	MOLECULAR STRUCTURE OF R(GCG)D(TATACGC): A DNA-RNA HYBRID HELIX JOINED TO DOUBLE HELICAL DNA 分子名称: DNA/RNA (5'-R(*GP*CP*GP*)-D(*TP*AP*TP*AP*CP*GP*C)-3') 著者 Wang, A.H.-J, Fujii, S, Van Boom, J.H, Van Der Marel, G.A, Van Boeckel, S.A.A, Rich, A. 登録日 1992-10-17 公開日 1993-07-15 最終更新日 2024-02-07 実験手法 X-RAY DIFFRACTION (2 Å) 主引用文献 Molecular structure of r(GCG)d(TATACGC): a DNA--RNA hybrid helix joined to double helical DNA. Nature, 299, 1982
8OR8	Solution structure of the 8-17 DNAzyme in presence of Zn2+ 分子名称: 8-17 DNAzyme 著者 Andralojc, W, Gdaniec, Z. 登録日 2023-04-13 公開日 2023-04-26 最終更新日 2024-06-19 実験手法 SOLUTION NMR 主引用文献 The 8-17 DNAzyme can operate in a single active structure regardless of metal ion cofactor. Nat Commun, 15, 2024
2CFM	ATP-DEPENDENT DNA LIGASE FROM PYROCOCCUS FURIOSUS 分子名称: ADENOSINE MONOPHOSPHATE, MAGNESIUM ION, THERMOSTABLE DNA LIGASE 著者 Nishida, H, Ishino, Y, Morikawa, K. 登録日 2006-02-22 公開日 2006-07-12 最終更新日 2019-02-06 実験手法 X-RAY DIFFRACTION (1.8 Å) 主引用文献 The Closed Structure of an Archaeal DNA Ligase from Pyrococcus Furiosus. J.Mol.Biol., 360, 2006
5EGO	HOXB13-MEIS1 heterodimer bound to methylated DNA 分子名称: DNA (5'-D(*CP*CP*TP*(5CM)P*GP*TP*AP*AP*AP*AP*CP*TP*GP*TP*CP*AP*AP*C)-3'), DNA (5'-D(P*GP*TP*TP*GP*AP*CP*AP*GP*TP*TP*TP*TP*AP*(5CM)P*GP*AP*GP*G)-3'), Homeobox protein Hox-B13, ... 著者 Morgunova, E, Yin, Y, Jolma, A, Popov, A, Taipale, J. 登録日 2015-10-27 公開日 2016-11-09 最終更新日 2024-01-10 実験手法 X-RAY DIFFRACTION (2.54 Å) 主引用文献 Impact of cytosine methylation on DNA binding specificities of human transcription factors. Science, 356, 2017
5EF6	Structure of HOXB13 complex with methylated DNA 分子名称: DNA (5'-D(P*GP*GP*AP*CP*CP*TP*(5CM)P*GP*TP*AP*AP*AP*AP*CP*AP*CP*AP*A)-3'), DNA (5'-D(P*TP*TP*GP*TP*GP*TP*TP*TP*TP*AP*(5CM)P*GP*AP*GP*GP*TP*CP*C)-3'), Homeobox protein Hox-B13 著者 Morgunova, E, Yin, Y, Jolma, A, Popov, A, Taipale, J. 登録日 2015-10-23 公開日 2017-02-08 最終更新日 2024-01-10 実験手法 X-RAY DIFFRACTION (3 Å) 主引用文献 Impact of cytosine methylation on DNA binding specificities of human transcription factors. Science, 356, 2017
2IHM	Polymerase mu in ternary complex with gapped 11mer DNA duplex and bound incoming nucleotide 分子名称: 2',3'-DIDEOXY-THYMIDINE-5'-TRIPHOSPHATE, 5'-D(*CP*AP*GP*TP*AP*T)-3', 5'-D(*CP*GP*GP*CP*AP*AP*TP*AP*CP*TP*G)-3', ... 著者 Moon, A.F, Pedersen, L.C, Kunkel, T.A. 登録日 2006-09-26 公開日 2006-12-12 最終更新日 2023-09-20 実験手法 X-RAY DIFFRACTION (2.4 Å) 主引用文献 Structural insight into the substrate specificity of DNA Polymerase mu. Nat.Struct.Mol.Biol., 14, 2007
3BSU	Hybrid-binding domain of human RNase H1 in complex with 12-mer RNA/DNA 分子名称: DNA (5'-D(*DGP*DAP*DAP*DTP*DCP*DAP*DGP*DGP*(5IU)P*DGP*DTP*DC)-3'), MAGNESIUM ION, RNA (5'-R(*GP*AP*CP*AP*CP*CP*UP*GP*AP*UP*UP*C)-3'), ... 著者 Nowotny, M, Cerritelli, S.M, Ghirlando, R, Gaidamakov, S.A, Crouch, R.J, Yang, W. 登録日 2007-12-26 公開日 2008-03-25 最終更新日 2024-02-21 実験手法 X-RAY DIFFRACTION (2.1 Å) 主引用文献 Specific recognition of RNA/DNA hybrid and enhancement of human RNase H1 activity by HBD. Embo J., 27, 2008
2LEX	Complex of the C-terminal WRKY domain of AtWRKY4 and a W-box DNA 分子名称: DNA (5'-D(*CP*G*CP*CP*TP*TP*TP*GP*AP*CP*CP*AP*GP*CP*GP*C)-3'), DNA (5'-D(*GP*CP*GP*C*TP*GP*GP*TP*CP*AP*AP*AP*GP*GP*CP*G)-3'), Probable WRKY transcription factor 4, ... 著者 Yamasaki, K, Kigawa, T, Watanabe, S, Inoue, M, Yokoyama, S, RIKEN Structural Genomics/Proteomics Initiative (RSGI) 登録日 2011-06-24 公開日 2012-01-18 最終更新日 2024-05-01 実験手法 SOLUTION NMR 主引用文献 Structural basis for sequence-spscific DNA recognition by an Arabidopsis WRKY transcription factor J.Biol.Chem., 2012
5KE6	mouse Klf4 ZnF1-3 and TpG/CpA sequence DNA complex structure 分子名称: DNA (5'-D(*GP*AP*GP*GP*TP*GP*TP*GP*GP*C)-3'), DNA (5'-D(*GP*CP*CP*AP*CP*AP*CP*CP*TP*C)-3'), Krueppel-like factor 4, ... 著者 Hashimoto, H, Cheng, X. 登録日 2016-06-09 公開日 2016-09-14 最終更新日 2023-09-27 実験手法 X-RAY DIFFRACTION (1.99 Å) 主引用文献 Distinctive Klf4 mutants determine preference for DNA methylation status. Nucleic Acids Res., 44, 2016
5KEB	mouse Klf4 ZnF1-3 (E446D) and CpG/CpG sequence DNA complex structure: Form II 分子名称: DNA (5'-D(*GP*AP*GP*GP*CP*GP*TP*GP*GP*C)-3'), DNA (5'-D(*GP*CP*CP*AP*CP*GP*CP*CP*TP*C)-3'), Krueppel-like factor 4, ... 著者 Hashimoto, H, Cheng, X. 登録日 2016-06-09 公開日 2016-09-14 最終更新日 2023-09-27 実験手法 X-RAY DIFFRACTION (2.453 Å) 主引用文献 Distinctive Klf4 mutants determine preference for DNA methylation status. Nucleic Acids Res., 44, 2016
5KE8	mouse Klf4 E446P ZnF1-3 and MpG/MpG sequence DNA complex structure 分子名称: DNA (5'-D(*GP*AP*GP*GP*(5CM)P*GP*TP*GP*GP*C)-3'), DNA (5'-D(*GP*CP*CP*AP*(5CM)P*GP*CP*CP*TP*C)-3'), Krueppel-like factor 4, ... 著者 Hashimoto, H, Cheng, X. 登録日 2016-06-09 公開日 2016-09-14 最終更新日 2023-09-27 実験手法 X-RAY DIFFRACTION (2.45 Å) 主引用文献 Distinctive Klf4 mutants determine preference for DNA methylation status. Nucleic Acids Res., 44, 2016
5KE9	mouse Klf4 E446P ZnF1-3 and TpG/CpA sequence DNA complex structure 分子名称: DNA (5'-D(*GP*AP*GP*GP*TP*GP*TP*GP*GP*C)-3'), DNA (5'-D(*GP*CP*CP*AP*CP*AP*CP*CP*TP*C)-3'), Krueppel-like factor 4, ... 著者 Hashimoto, H, Cheng, X. 登録日 2016-06-09 公開日 2016-09-14 最終更新日 2023-09-27 実験手法 X-RAY DIFFRACTION (2.336 Å) 主引用文献 Distinctive Klf4 mutants determine preference for DNA methylation status. Nucleic Acids Res., 44, 2016
5KEA	mouse Klf4 ZnF1-3 (E446D) and CpG/CpG sequence DNA complex structure: Form I 分子名称: DNA (5'-D(*GP*AP*GP*GP*CP*GP*TP*GP*GP*C)-3'), DNA (5'-D(*GP*CP*CP*AP*CP*GP*CP*CP*TP*C)-3'), Krueppel-like factor 4, ... 著者 Hashimoto, H, Cheng, X. 登録日 2016-06-09 公開日 2016-09-14 最終更新日 2023-09-27 実験手法 X-RAY DIFFRACTION (2.458 Å) 主引用文献 Distinctive Klf4 mutants determine preference for DNA methylation status. Nucleic Acids Res., 44, 2016
2FLP	Binary complex of the catalytic core of human DNA polymerase iota with DNA (template G) 分子名称: DNA polymerase iota, DNA primer strand, DNA template strand 著者 Nair, D.T, Johnson, R.E, Prakash, L, Prakash, S, Aggarwal, A.K. 登録日 2006-01-06 公開日 2006-12-05 最終更新日 2024-04-03 実験手法 X-RAY DIFFRACTION (2.4 Å) 主引用文献 An incoming nucleotide imposes an anti to syn conformational change on the templating purine in the human DNA polymerase-iota active site. Structure, 14, 2006
2FLN	binary complex of catalytic core of human DNA polymerase iota with DNA (template A) 分子名称: DNA polymerase iota, DNA primer strand, DNA template strand 著者 Nair, D.T, Johnson, R.E, Prakash, L, Prakash, S, Aggarwal, A.K. 登録日 2006-01-06 公開日 2006-12-05 最終更新日 2023-08-30 実験手法 X-RAY DIFFRACTION (2.5 Å) 主引用文献 An incoming nucleotide imposes an anti to syn conformational change on the templating purine in the human DNA polymerase-iota active site. Structure, 14, 2006
2Z6A	S-Adenosyl-L-methionine-Dependent Methyl Transfer: Observable Precatalytic Intermediates during DNA Cytosine Methylation 分子名称: DNA (5'-D(*DGP*DAP*DTP*DAP*DGP*DCP*DGP*DCP*DTP*DAP*DTP*DC)-3'), DNA (5'-D(*DTP*DGP*DAP*DTP*DAP*DGP*DCP*DGP*DCP*DTP*DAP*DTP*DC)-3'), Modification methylase HhaI, ... 著者 Shieh, F.K. 登録日 2007-07-25 公開日 2007-08-21 最終更新日 2023-11-01 実験手法 X-RAY DIFFRACTION (2.88 Å) 主引用文献 S-Adenosyl-l-methionine-Dependent Methyl Transfer: Observable Precatalytic Intermediates during DNA Cytosine Methylation Biochemistry, 46, 2007
6VTX	Crystal structure of human KLF4 zinc finger DNA binding domain in complex with NANOG DNA 分子名称: DNA (5'-D(*AP*GP*GP*GP*GP*GP*TP*GP*TP*GP*CP*C)-3'), DNA (5'-D(*GP*GP*CP*AP*CP*AP*CP*CP*CP*CP*CP*T)-3'), Krueppel-like factor 4, ... 著者 Sharma, R, Sharma, S, Choi, K.J, Ferreon, A.C.M, Ferreon, J.C, Sankaran, B, MacKenzie, K.R, Kim, C. 登録日 2020-02-13 公開日 2021-09-01 最終更新日 2023-10-11 実験手法 X-RAY DIFFRACTION (2.14 Å) 主引用文献 Liquid condensation of reprogramming factor KLF4 with DNA provides a mechanism for chromatin organization. Nat Commun, 12, 2021
5EOS	Crystallizing Strained DNA: Self-Assembly of 3D Crystals Containing a Torsionally-Stressed Component 分子名称: DNA (5'-D(*TP*CP*TP*GP*AP*TP*GP*TP*GP*CP*TP*GP*C)-3'), DNA (5'-D(P*AP*CP*GP*GP*AP*CP*AP*TP*CP*A)-3'), DNA (5'-D(P*CP*AP*CP*AP*CP*CP*GP*T)-3'), ... 著者 Hernandez, C, Birktoft, J.J, Seeman, N.C. 登録日 2015-11-10 公開日 2017-08-09 最終更新日 2024-03-06 実験手法 X-RAY DIFFRACTION (4.7 Å) 主引用文献 Self-Assembly of 3D DNA Crystals Containing a Torsionally Stressed Component. Cell Chem Biol, 2017
3BVS	Crystal Structure of Bacillus cereus Alkylpurine DNA Glycosylase AlkD 分子名称: Alkylpurine DNA Glycosylase AlkD 著者 Rubinson, E.H, Eichman, B.F. 登録日 2008-01-07 公開日 2008-07-15 最終更新日 2024-02-21 実験手法 X-RAY DIFFRACTION (2.1 Å) 主引用文献 A New Protein Architecture for Processing Alkylation Damaged DNA: The Crystal Structure of DNA Glycosylase AlkD. J.Mol.Biol., 381, 2008
6WH1	Structure of the complex of human DNA ligase III-alpha and XRCC1 BRCT domains 分子名称: DNA ligase 3 alpha, X-ray repair cross complementing protein 1 variant 著者 Pourfarjam, Y, Ellenberger, T, Tainer, J.A, Tomkinson, A.E, Kim, I.K. 登録日 2020-04-07 公開日 2020-12-02 最終更新日 2024-03-06 実験手法 X-RAY DIFFRACTION (2.4 Å) 主引用文献 An atypical BRCT-BRCT interaction with the XRCC1 scaffold protein compacts human DNA Ligase III alpha within a flexible DNA repair complex. Nucleic Acids Res., 49, 2021
5CRX	ASYMMETRIC DNA-BENDING IN THE CRE-LOXP SITE-SPECIFIC RECOMBINATION SYNAPSE 分子名称: DNA (35-MER), PROTEIN (BACTERIOPHAGE P1 CRE GENE) 著者 Guo, F, Gopaul, D.N, Van Duyne, G.D. 登録日 1999-04-21 公開日 1999-07-07 最終更新日 2023-09-20 実験手法 X-RAY DIFFRACTION (2.7 Å) 主引用文献 Asymmetric DNA bending in the Cre-loxP site-specific recombination synapse. Proc.Natl.Acad.Sci.USA, 96, 1999
6ASF	NMR and Restrained Molecular Dynamics Determination of the Structure of an Aza-Benzimidazole Derivative Complex with the DNA Minor Groove of an -AAGATA- Sequence 分子名称: DNA (5'-D(*CP*CP*AP*AP*GP*AP*TP*AP*G)-3'), DNA (5'-D(*CP*TP*AP*TP*CP*TP*TP*GP*G)-3') 著者 Harika, N.K, Germann, M.W, Boykin, D.W. 登録日 2017-08-24 公開日 2018-01-31 最終更新日 2024-05-01 実験手法 SOLUTION NMR 主引用文献 First Structure of a Designed Minor Groove Binding Heterocyclic Cation that Specifically Recognizes Mixed DNA Base Pair Sequences. Chemistry, 23, 2017
6ZT3	N-terminal 47 kDa fragment of the Mycobacterium smegmatis DNA Gyrase B subunit complexed with ADPNP 分子名称: 1,2-ETHANEDIOL, DNA gyrase subunit B, MAGNESIUM ION, ... 著者 Feng, L, Mundy, J.E.A, Stevenson, C.E.M, Mitchenall, L.A, Lawson, D.M, Mi, K, Maxwell, A. 登録日 2020-07-17 公開日 2021-03-03 最終更新日 2024-01-31 実験手法 X-RAY DIFFRACTION (1.56 Å) 主引用文献 The pentapeptide-repeat protein, MfpA, interacts with mycobacterial DNA gyrase as a DNA T-segment mimic. Proc.Natl.Acad.Sci.USA, 118, 2021
6AST	NMR and Restrained Molecular Dynamics Determination of the Structure of an Aza-Benzimidazole Derivative Complex with the DNA Minor Groove of an -AAGATA Sequence 分子名称: DNA (5'-D(*CP*CP*AP*AP*GP*AP*TP*AP*G)-3'), DNA (5'-D(*CP*TP*AP*TP*CP*TP*TP*GP*G)-3'), amino(4-{[(2-{4-[amino(iminio)methyl]phenyl}-3H-imidazo[4,5-b]pyridin-5-yl)oxy]methyl}phenyl)methaniminium 著者 Harika, N.K, Germann, M.W, Wilson, W.D. 登録日 2017-08-25 公開日 2018-01-31 最終更新日 2024-05-01 実験手法 SOLUTION NMR 主引用文献 First Structure of a Designed Minor Groove Binding Heterocyclic Cation that Specifically Recognizes Mixed DNA Base Pair Sequences. Chemistry, 23, 2017

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