PDB: 48855 resultsInfo pagesStatus searchChemie searchBIRD

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6V8P	Structure of DNA Polymerase Zeta (Apo) Descriptor: DNA polymerase delta small subunit, DNA polymerase delta subunit 3, DNA polymerase zeta catalytic subunit, ... Authors: Malik, R, Gomez-Llorente, Y, Ubarretxena-Belandia, I, Aggarwal, A.K. Deposit date: 2019-12-11 Release date: 2020-08-19 Last modified: 2025-05-14 Method: ELECTRON MICROSCOPY (4.1 Å) Cite: Structure and mechanism of B-family DNA polymerase zeta specialized for translesion DNA synthesis. Nat.Struct.Mol.Biol., 27, 2020
1B0S	BINDING OF AR-1-144, A TRI-IMIDAZOLE DNA MINOR GROOVE BINDER, TO CCGG SEQUENCE ANALYZED BY NMR SPECTROSCOPY Descriptor: (2-{[4-({4-[(4-FORMYLAMINO-1-METHYL-1H-IMIDAZOLE-2-CARBONYL)-AMINO]-1-METHYL-1H-IMIDAZOLE-2-CARBONYL}-AMINO)-1-METHYL-1 H-IMIDAZOLE-2-CARBONYL]-AMINO}-ETHYL)-DIMETHYL-AMMONIUM, DNA (5'-D(*GP*AP*AP*CP*CP*GP*GP*TP*TP*C)-3') Authors: Yang, X.-L, Kaenzig, C, Lee, M, Wang, A.H.-J. Deposit date: 1998-11-12 Release date: 1999-08-31 Last modified: 2023-12-27 Method: SOLUTION NMR Cite: Binding of AR-1-144, a tri-imidazole DNA minor groove binder, to CCGG sequence analyzed by NMR spectroscopy. Eur.J.Biochem., 263, 1999
4QWC	Ternary Crystal Structures of a Y-family DNA polymerase DPO4 from Sulfobus Solfataricus in Comples with DNA and L-DCDP Descriptor: 4-amino-1-{2-deoxy-5-O-[(R)-hydroxy(phosphonooxy)phosphoryl]-beta-L-erythro-pentofuranosyl}pyrimidin-2(1H)-one, ACETATE ION, CALCIUM ION, ... Authors: Vyas, R, Suo, Z. Deposit date: 2014-07-16 Release date: 2014-08-27 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Structural and kinetic insights into binding and incorporation of L-nucleotide analogs by a Y-family DNA polymerase. Nucleic Acids Res., 42, 2014
4ELU	Snapshot of the large fragment of DNA polymerase I from Thermus Aquaticus processing modified pyrimidines Descriptor: 2'-deoxy-5-[(4-ethynylphenyl)ethynyl]cytidine 5'-(tetrahydrogen triphosphate), ACETATE ION, DNA (5'-D(*AP*AP*AP*GP*CP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3'), ... Authors: Marx, A, Diederichs, K, Obeid, S. Deposit date: 2012-04-11 Release date: 2013-03-27 Last modified: 2023-09-13 Method: X-RAY DIFFRACTION (1.8 Å) Cite: Interactions of non-polar and "Click-able" nucleotides in the confines of a DNA polymerase active site. Chem.Commun.(Camb.), 48, 2012
8T9U	Human PU.1 ETS-domain (165-270) in complex with d(AATAAGCGIAAGTGGG) Descriptor: DNA (5'-D(*AP*AP*TP*AP*AP*GP*CP*GP*IP*AP*AP*GP*TP*GP*GP*G)-3'), DNA (5'-D(*TP*CP*CP*CP*AP*CP*TP*TP*CP*CP*GP*CP*TP*TP*AP*T)-3'), SODIUM ION, ... Authors: Terrell, J.R, Poon, G.M.K. Deposit date: 2023-06-26 Release date: 2023-11-29 Last modified: 2024-01-17 Method: X-RAY DIFFRACTION (1.47 Å) Cite: Dissection of integrated readout reveals the structural thermodynamics of DNA selection by transcription factors. Structure, 32, 2024
4RTO	Complex of Escherichia coli DNA Adenine Methyltransferase (DAM) with Sinefungin and with DNA Containing Proximal Pap Regulon Sequence Descriptor: DNA (5'-D(*AP*CP*GP*AP*TP*CP*TP*TP*TP*AP*A)-3'), DNA (5'-D(*TP*TP*TP*AP*AP*AP*GP*AP*TP*CP*G)-3'), DNA adenine methylase, ... Authors: Horton, J.R, Cheng, X. Deposit date: 2014-11-15 Release date: 2015-04-15 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.69 Å) Cite: Structures of Escherichia coli DNA adenine methyltransferase (Dam) in complex with a non-GATC sequence: potential implications for methylation-independent transcriptional repression. Nucleic Acids Res., 43, 2015
4RTN	Complex of Escherichia coli DNA Adenine Methyltransferase (DAM) with AdoHcy and with DNA Containing Proximal Pap Regulon Sequence Descriptor: DNA (5'-D(*AP*CP*GP*AP*TP*CP*TP*TP*TP*AP*A)-3'), DNA (5'-D(*TP*TP*TP*AP*AP*AP*GP*AP*TP*CP*G)-3'), DNA adenine methylase, ... Authors: Horton, J.R, Cheng, X. Deposit date: 2014-11-15 Release date: 2015-04-15 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.59 Å) Cite: Structures of Escherichia coli DNA adenine methyltransferase (Dam) in complex with a non-GATC sequence: potential implications for methylation-independent transcriptional repression. Nucleic Acids Res., 43, 2015
4YNQ	TREX1-dsDNA complex Descriptor: DNA (24-MER), DNA (5'-D(P*GP*TP*GP*CP*TP*GP*AP*CP*GP*TP*CP*AP*GP*CP*AP*CP*GP*AP*CP*G)-3'), MAGNESIUM ION, ... Authors: Fye, J.M, Harvey, S, Perrino, F.W, Hollis, T. Deposit date: 2015-03-10 Release date: 2015-05-27 Last modified: 2025-02-12 Method: X-RAY DIFFRACTION (2.8 Å) Cite: Exonuclease TREX1 degrades double-stranded DNA to prevent spontaneous lupus-like inflammatory disease. Proc.Natl.Acad.Sci.USA, 112, 2015
3G8X	GR DNA binding domain:GilZ 16bp complex-65 Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*AP*AP*GP*AP*AP*CP*AP*TP*TP*GP*GP*GP*TP*TP*CP*C)-3'), DNA (5'-D(*TP*GP*GP*AP*AP*CP*CP*CP*AP*AP*TP*GP*TP*TP*CP*T)-3'), ... Authors: Pufall, M.A, Yamamoto, K.R, Meijsing, S.H. Deposit date: 2009-02-12 Release date: 2009-04-21 Last modified: 2024-11-06 Method: X-RAY DIFFRACTION (2.05 Å) Cite: DNA binding site sequence directs glucocorticoid receptor structure and activity. Science, 324, 2009
4RTM	Complex of Escherichia coli DNA Adenine Methyltransferase (DAM) with AdoMet and with DNA Containing Distal Pap Regulon Sequence Descriptor: DNA (5'-D(*AP*CP*GP*AP*TP*CP*TP*TP*TP*AP*G)-3'), DNA (5'-D(*TP*CP*TP*AP*AP*AP*GP*AP*TP*CP*G)-3'), DNA adenine methylase, ... Authors: Horton, J.R, Cheng, X. Deposit date: 2014-11-15 Release date: 2015-04-15 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Structures of Escherichia coli DNA adenine methyltransferase (Dam) in complex with a non-GATC sequence: potential implications for methylation-independent transcriptional repression. Nucleic Acids Res., 43, 2015
4ELT	Snapshot of the large fragment of DNA polymerase I from Thermus Aquaticus processing modified pyrimidines Descriptor: 1,2-ETHANEDIOL, 2'-deoxy-5-[(4-ethynylphenyl)ethynyl]uridine 5'-(tetrahydrogen triphosphate), ACETATE ION, ... Authors: Marx, A, Diederichs, K, Obeid, S. Deposit date: 2012-04-11 Release date: 2013-03-27 Last modified: 2023-09-13 Method: X-RAY DIFFRACTION (2.2 Å) Cite: Interactions of non-polar and "Click-able" nucleotides in the confines of a DNA polymerase active site. Chem.Commun.(Camb.), 48, 2012
4RTP	Complex of Escherichia coli DNA Adenine Methyltransferase (DAM) with AdoMet and with DNA Containing Proximal Pap Regulon Sequence Descriptor: DNA (5'-D(*AP*CP*GP*AP*TP*CP*TP*TP*TP*AP*A)-3'), DNA (5'-D(*TP*TP*TP*AP*AP*AP*GP*AP*TP*CP*G)-3'), DNA adenine methylase, ... Authors: Horton, J.R, Cheng, X. Deposit date: 2014-11-15 Release date: 2015-04-15 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.39 Å) Cite: Structures of Escherichia coli DNA adenine methyltransferase (Dam) in complex with a non-GATC sequence: potential implications for methylation-independent transcriptional repression. Nucleic Acids Res., 43, 2015
4RTL	Complex of Escherichia coli DNA Adenine Methyltransferase (DAM) with Sinefungin and with DNA Containing Distal Pap Regulon Sequence Descriptor: DNA (5'-D(*AP*CP*GP*AP*TP*CP*TP*TP*TP*AP*G)-3'), DNA (5'-D(*TP*CP*TP*AP*AP*AP*GP*AP*TP*CP*G)-3'), DNA adenine methylase, ... Authors: Horton, J.R, Cheng, X. Deposit date: 2014-11-15 Release date: 2015-04-15 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.193 Å) Cite: Structures of Escherichia coli DNA adenine methyltransferase (Dam) in complex with a non-GATC sequence: potential implications for methylation-independent transcriptional repression. Nucleic Acids Res., 43, 2015
1KTQ	DNA POLYMERASE Descriptor: DNA POLYMERASE I Authors: Korolev, S, Waksman, G. Deposit date: 1995-08-16 Release date: 1996-11-08 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Crystal structure of the large fragment of Thermus aquaticus DNA polymerase I at 2.5-A resolution: structural basis for thermostability. Proc.Natl.Acad.Sci.USA, 92, 1995
7CPW	Complex structure of DNA with self-catalyzed depurination activity Descriptor: DNA (5'-D(*CP*GP*TP*GP*AP*TP*CP*GP*GP*AP*GP*AP*CP*GP*AP*TP*CP*AP*CP*G)-3'), DNA polymerase beta-like protein Authors: Gan, J.H. Deposit date: 2020-08-08 Release date: 2021-08-18 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (2.849 Å) Cite: Crystallization and Structural Determination of 8-17 DNAzyme. Methods Mol.Biol., 2439, 2022
3G99	GR DNA binding domain:Pal complex-9 Descriptor: 1,2-ETHANEDIOL, BROMIDE ION, DNA (5'-D(*AP*AP*GP*AP*AP*CP*AP*TP*TP*TP*TP*GP*TP*TP*CP*T)-3'), ... Authors: Pufall, M.A, Yamamoto, K.R, Meijsing, S.H. Deposit date: 2009-02-13 Release date: 2009-04-21 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (1.81 Å) Cite: DNA binding site sequence directs glucocorticoid receptor structure and activity. Science, 324, 2009
6GVQ	DNA-bound pRN1 helix bundle domain with ATP and magnesium in the interaction buffer Descriptor: DNA (5'-D(*CP*TP*GP*TP*GP*CP*TP*CP*A)-3'), functional pRN1 primase Authors: Boudet, J, Lipps, G, Allain, F.H.-T. Deposit date: 2018-06-21 Release date: 2018-12-26 Last modified: 2024-11-06 Method: SOLUTION NMR Cite: A Small Helical Bundle Prepares Primer Synthesis by Binding Two Nucleotides that Enhance Sequence-Specific Recognition of the DNA Template. Cell, 176, 2019
6GW7	The CTD of HpDprA, a DNA binding Winged Helix domain which do not bind dsDNA Descriptor: DNA protecting protein DprA Authors: Lisboa, J, Celma, L, Sanchez, D, Marquis, M, Andreani, J, Guerois, R, Ochsenbein, F, Durand, D, Marsin, S, Cuniasse, P, Radicella, J.P, Quevillon-Cheruel, S. Deposit date: 2018-06-22 Release date: 2019-04-24 Last modified: 2024-06-19 Method: SOLUTION NMR Cite: The C-terminal domain of HpDprA is a DNA-binding winged helix domain that does not bind double-stranded DNA. Febs J., 286, 2019
3G9J	GR DNA binding domain:Pal, 18bp complex-36 Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*CP*CP*AP*GP*AP*AP*CP*AP*AP*AP*AP*TP*GP*TP*TP*CP*TP*G)-3'), DNA (5'-D(*CP*CP*AP*GP*AP*AP*CP*AP*TP*TP*TP*TP*GP*TP*TP*CP*TP*G)-3'), ... Authors: Pufall, M.A, Yamamoto, K.R, Meijsing, S.H. Deposit date: 2009-02-13 Release date: 2009-04-21 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (2.32 Å) Cite: DNA binding site sequence directs glucocorticoid receptor structure and activity. Science, 324, 2009
4RTR	Complex of Escherichia coli DNA Adenine Methyltransferase (DAM) with AdoMet and a 5-bp non-canonical site (GTTTA ) Descriptor: DNA (5'-D(*AP*CP*TP*TP*AP*AP*AP*CP*TP*TP*AP*A)-3'), DNA (5'-D(*TP*TP*TP*AP*AP*GP*TP*TP*TP*AP*AP*G)-3'), DNA adenine methylase, ... Authors: Horton, J.R, Cheng, X. Deposit date: 2014-11-15 Release date: 2015-04-15 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.393 Å) Cite: Structures of Escherichia coli DNA adenine methyltransferase (Dam) in complex with a non-GATC sequence: potential implications for methylation-independent transcriptional repression. Nucleic Acids Res., 43, 2015
3G6P	GR DNA binding domain:FKBP5 complex, 18bp Descriptor: ACETATE ION, DNA (5'-D(*CP*CP*AP*GP*AP*AP*CP*AP*CP*CP*CP*TP*GP*TP*TP*CP*TP*G)-3'), DNA (5'-D(*CP*CP*AP*GP*AP*AP*CP*AP*GP*GP*GP*TP*GP*TP*TP*CP*TP*G)-3'), ... Authors: Pufall, M.A, Yamamoto, K.R, Meijsing, S.H. Deposit date: 2009-02-07 Release date: 2009-04-21 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (1.985 Å) Cite: DNA binding site sequence directs glucocorticoid receptor structure and activity. Science, 324, 2009
3G9I	GR DNA Binding domain: Pal complex-35 Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*AP*AP*GP*AP*AP*CP*AP*TP*TP*TP*TP*GP*TP*TP*CP*T)-3'), DNA (5'-D(*TP*AP*GP*AP*AP*CP*AP*AP*AP*AP*TP*GP*TP*TP*CP*T)-3'), ... Authors: Pufall, M.A, Yamamoto, K.R, Meijsing, S.H. Deposit date: 2009-02-13 Release date: 2009-04-21 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (1.85 Å) Cite: DNA binding site sequence directs glucocorticoid receptor structure and activity. Science, 324, 2009
4EQ5	DNA ligase from the archaeon Thermococcus sibiricus Descriptor: ADENOSINE MONOPHOSPHATE, DNA ligase Authors: Petrova, T, Bezsudnova, E.Y, Dorokhov, B.D, Slutskaya, E.S, Polyakov, K.M, Dorovatovskiy, P.V, Ravin, N.V, Skryabin, K.G, Kovalchuk, M.V, Popov, V.O. Deposit date: 2012-04-18 Release date: 2012-05-09 Last modified: 2023-09-13 Method: X-RAY DIFFRACTION (2.85 Å) Cite: Expression, purification, crystallization and preliminary crystallographic analysis of a thermostable DNA ligase from the archaeon Thermococcus sibiricus. Acta Crystallogr.,Sect.F, 68, 2012
8EZ9	Dimeric complex of DNA-PKcs Descriptor: DNA-dependent protein kinase catalytic subunit, unknown region of DNA-PKcs Authors: Chen, S, He, Y. Deposit date: 2022-10-31 Release date: 2023-06-14 Last modified: 2024-06-19 Method: ELECTRON MICROSCOPY (5.67 Å) Cite: Cryo-EM visualization of DNA-PKcs structural intermediates in NHEJ. Sci Adv, 9, 2023
2ZKE	Crystal structure of the SRA domain of mouse Np95 in complex with hemi-methylated CpG DNA Descriptor: DNA (5'-D(*DCP*DTP*DAP*DCP*DCP*DGP*DGP*DAP*DTP*DTP*DGP*DC)-3'), DNA (5'-D(*DGP*DCP*DAP*DAP*DTP*DCP*(5CM)P*DGP*DGP*DTP*DAP*DG)-3'), E3 ubiquitin-protein ligase UHRF1 Authors: Arita, K, Ariyoshi, M, Tochio, H, Nakamura, Y, Shirakawa, M. Deposit date: 2008-03-19 Release date: 2008-09-09 Last modified: 2023-11-01 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Recognition of hemi-methylated DNA by the SRA protein UHRF1 by a base-flipping mechanism Nature, 455, 2008

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