PDB: 45953 resultsInfo pagesStatus searchChemie searchBIRD

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2EVI	Structure of a Ndt80-DNA complex (MSE mutant mA8T) Descriptor: 5'-D(*AP*GP*TP*TP*AP*TP*TP*GP*TP*GP*TP*CP*GP*C)-3', 5'-D(*TP*GP*CP*GP*AP*CP*AP*CP*AP*AP*TP*AP*AP*C)-3', NDT80 protein Authors: Lamoureux, J.S, Glover, J.N. Deposit date: 2005-10-31 Release date: 2006-03-21 Last modified: 2023-08-23 Method: X-RAY DIFFRACTION (1.8 Å) Cite: Principles of Protein-DNA Recognition Revealed in the Structural Analysis of Ndt80-MSE DNA Complexes. Structure, 14, 2006
2EVJ	Structure of an Ndt80-DNA complex (MSE mutant mA9C) Descriptor: 5'-D(*AP*GP*TP*GP*TP*TP*TP*GP*TP*GP*TP*CP*GP*C)-3', 5'-D(*TP*GP*CP*GP*AP*CP*AP*CP*AP*AP*AP*CP*AP*C)-3', NDT80 protein Authors: Lamoureux, J.S, Glover, J.N. Deposit date: 2005-10-31 Release date: 2006-03-21 Last modified: 2023-08-23 Method: X-RAY DIFFRACTION (1.89 Å) Cite: Principles of Protein-DNA Recognition Revealed in the Structural Analysis of Ndt80-MSE DNA Complexes. Structure, 14, 2006
2D1V	Crystal structure of DNA-binding domain of Bacillus subtilis YycF Descriptor: Transcriptional regulatory protein yycF Authors: Okajima, T, Okada, A, Watanabe, T, Yamamoto, K, Tanizawa, K, Utsumi, R. Deposit date: 2005-09-01 Release date: 2006-09-12 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Response regulator YycF essential for bacterial growth: X-ray crystal structure of the DNA-binding domain and its PhoB-like DNA recognition motif Febs Lett., 582, 2008
2EVG	Structure of a Ndt80-DNA complex (MSE mutant mA7T) Descriptor: 5'-D(*AP*GP*TP*TP*TP*AP*TP*GP*TP*GP*TP*CP*GP*C)-3', 5'-D(*TP*GP*CP*GP*AP*CP*AP*CP*AP*TP*AP*AP*AP*C)-3', NDT80 protein Authors: Lamoureux, J.S, Glover, J.N. Deposit date: 2005-10-31 Release date: 2006-03-21 Last modified: 2023-08-23 Method: X-RAY DIFFRACTION (1.55 Å) Cite: Principles of Protein-DNA Recognition Revealed in the Structural Analysis of Ndt80-MSE DNA Complexes. Structure, 14, 2006
2EVF	Structure of a Ndt80-DNA complex (MSE mutant mA6T) Descriptor: 5'-D(*AP*GP*TP*TP*TP*TP*AP*GP*TP*GP*TP*CP*GP*C)-3', 5'-D(*TP*GP*CP*GP*AP*CP*AP*CP*TP*AP*AP*AP*AP*C)-3', NDT80 protein Authors: Lamoureux, J.S, Glover, J.N. Deposit date: 2005-10-31 Release date: 2006-03-21 Last modified: 2023-08-23 Method: X-RAY DIFFRACTION (1.56 Å) Cite: Principles of Protein-DNA Recognition Revealed in the Structural Analysis of Ndt80-MSE DNA Complexes. Structure, 14, 2006
6X71	Rev1 Mg2+-facilitated Intermediate complex with reactant dCTP and product dCMP Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*AP*TP*CP*GP*CP*TP*AP*CP*CP*AP*CP*AP*CP*CP*CP*C)-3'), DNA (5'-D(*GP*GP*GP*GP*TP*GP*TP*GP*GP*TP*AP*GP*C*(MG))-3'), ... Authors: Weaver, T.M, Freudenthal, B.D. Deposit date: 2020-05-29 Release date: 2020-09-30 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (1.78 Å) Cite: Visualizing Rev1 catalyze protein-template DNA synthesis. Proc.Natl.Acad.Sci.USA, 117, 2020
2J6T	Ternary complex of Sulfolobus solfataricus Dpo4 DNA polymerase, O6- methylguanine modified DNA, and dATP. Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*C)-3', 5'-D(*TP*CP*AP*TP*XP*GP*AP*AP*TP*CP *CP*TP*TP*CP*CP*CP*CP*C)-3', ... Authors: Irimia, A, Eoff, R.L, Guengerich, F.P, Egli, M. Deposit date: 2006-10-04 Release date: 2006-11-22 Last modified: 2023-12-13 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Sulfolobus Solfataricus DNA Polymerase Dpo4 is Partially Inhibited by "Wobble" Pairing between O6- Methylguanine and Cytosine, But Accurate Bypass is Preferred. J.Biol.Chem., 282, 2007
2J6S	Ternary complex of Sulfolobus solfataricus Dpo4 DNA polymerase, O6- methylguanine modified DNA, and dATP. Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*CP*C)-3', 5'-D(*TP*CP*AP*TP*XP*GP*AP*AP*TP*CP *CP*TP*TP*CP*CP*CP*CP*C)-3', ... Authors: Irimia, A, Eoff, R.L, Guengerich, F.P, Egli, M. Deposit date: 2006-10-04 Release date: 2006-11-22 Last modified: 2023-12-13 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Sulfolobus Solfataricus DNA Polymerase Dpo4 is Partially Inhibited by "Wobble" Pairing between O6- Methylguanine and Cytosine, But Accurate Bypass is Preferred. J.Biol.Chem., 282, 2007
4OV7	Ancestral Steroid Receptor 2 DBD helix mutant - SRE DNA complex Descriptor: 5'-D(*CP*CP*AP*GP*AP*AP*CP*AP*GP*AP*GP*TP*GP*TP*TP*CP*TP*G)-3', 5'-D(*TP*CP*AP*GP*AP*AP*CP*AP*CP*TP*CP*TP*GP*TP*TP*CP*TP*G)-3', Ancestral Steroid Receptor 2 DBD helix mutant, ... Authors: Ortlund, E.A. Deposit date: 2014-02-20 Release date: 2014-10-29 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.701 Å) Cite: Evolution of DNA specificity in a transcription factor family produced a new gene regulatory module. Cell(Cambridge,Mass.), 159, 2014
8BH3	DNA-PK Ku80 mediated dimer bound to PAXX Descriptor: DNA (25-MER), DNA (26-MER), DNA (27-MER), ... Authors: Hardwick, S.W, Chaplin, A.K. Deposit date: 2022-10-28 Release date: 2023-06-07 Last modified: 2024-07-24 Method: ELECTRON MICROSCOPY (4.55 Å) Cite: PAXX binding to the NHEJ machinery explains functional redundancy with XLF. Sci Adv, 9, 2023
8BHV	DNA-PK XLF mediated dimer bound to PAXX Descriptor: DNA (24-MER), DNA (26-MER), DNA (27-MER), ... Authors: Hardwick, S.W, Chaplin, A.K. Deposit date: 2022-11-01 Release date: 2023-06-07 Last modified: 2024-07-24 Method: ELECTRON MICROSCOPY (4.51 Å) Cite: PAXX binding to the NHEJ machinery explains functional redundancy with XLF. Sci Adv, 9, 2023
8BHY	DNA-PK Ku80 mediated dimer bound to PAXX and XLF Descriptor: DNA (25-MER), DNA (26-MER), DNA (27-MER), ... Authors: Hardwick, S.W, Chaplin, A.K. Deposit date: 2022-11-01 Release date: 2023-06-07 Last modified: 2024-07-24 Method: ELECTRON MICROSCOPY (5.33 Å) Cite: PAXX binding to the NHEJ machinery explains functional redundancy with XLF. Sci Adv, 9, 2023
7T8I	Crystal structure of the ImmR transcriptional regulator DNA-binding domain of Bacillus subtilis Descriptor: Phage element (ICEBs1)transcriptional regulator (Xre family) Authors: Caliandro, R, de Diego, I, Gomis-Ruth, F.X. Deposit date: 2021-12-16 Release date: 2022-03-16 Last modified: 2024-04-03 Method: X-RAY DIFFRACTION (2.1 Å) Cite: Crystal structure report of the ImmR transcriptional regulator DNA-binding domain of the Bacillus subtilis ICEBs1 transposon. Sci Rep, 12, 2022
2M87	Structural Basis of DNA Recognition by the Effector Domain of Klebsiella pneumoniae PmrA Descriptor: Transcriptional regulatory protein basR/pmrA Authors: Wang, I, Lou, Y.C, Chen, C. Deposit date: 2013-05-07 Release date: 2014-01-22 Last modified: 2024-05-15 Method: SOLUTION NMR Cite: Solution structure and tandem DNA recognition of the C-terminal effector domain of PmrA from Klebsiella pneumoniae. Nucleic Acids Res., 42, 2014
2J6U	Ternary complex of Sulfolobus solfataricus Dpo4 DNA polymerase, O6- methylguanine modified DNA, and dGTP. Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*CP*T)-3', 5'-D(*TP*CP*AP*C G32P*GP*AP*AP*TP*CP*CP *TP*TP*CP*CP*CP*CP*C)-3', ... Authors: Eoff, R.L, Irimia, A, Guengerich, F.P, Egli, M. Deposit date: 2006-10-04 Release date: 2006-11-22 Last modified: 2023-12-13 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Sulfolobus Solfataricus DNA Polymerase Dpo4 is Partially Inhibited by "Wobble" Pairing between O6- Methylguanine and Cytosine, But Accurate Bypass is Preferred. J.Biol.Chem., 282, 2007
6VG6	Crystal structure of DPO4 with 8-oxoadenine (oxoA) and dGTP* Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]guanosine, DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*C)-3'), DNA (5'-D(*TP*CP*AP*TP*(A38)P*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3'), ... Authors: Jung, H, Lee, S. Deposit date: 2020-01-07 Release date: 2021-01-06 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (3.08 Å) Cite: Promutagenic bypass of 7,8-dihydro-8-oxoadenine by translesion synthesis DNA polymerase Dpo4. Biochem.J., 477, 2020
6VKP	Crystal structure of DPO4 extension past 8-oxoadenine (oxoA) and dG Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]adenosine, DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*AP*GP*AP*TP*TP*CP*G)-3'), DNA (5'-D(*TP*TP*CP*AP*TP*(A38)P*GP*AP*AP*TP*CP*TP*TP*TP*CP*CP*CP*CP*C)-3'), ... Authors: Jung, H, Lee, S. Deposit date: 2020-01-21 Release date: 2021-01-27 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (2.54 Å) Cite: Insights into the mismatch discrimination mechanism of Y-family DNA polymerase Dpo4. Biochem.J., 478, 2021
4M8B	Fungal Protein Descriptor: 1,2-ETHANEDIOL, Chain A of dsDNA containing the cis-regulatory element, Chain B of dsDNA containing the cis-regulatory element, ... Authors: Rosenberg, O.S, Lohse, M.L, Stroud, R.M, Johnson, A.D. Deposit date: 2013-08-13 Release date: 2014-06-25 Last modified: 2024-04-03 Method: X-RAY DIFFRACTION (2.61 Å) Cite: Structure of a new DNA-binding domain which regulates pathogenesis in a wide variety of fungi. Proc.Natl.Acad.Sci.USA, 111, 2014
2GPE	Structure of the DNA-binding domain of E. Coli Proline Utilization A (PUTA) Descriptor: Bifunctional protein putA, IMIDAZOLE Authors: Jenkins, J.L, Larson, J, Tanner, J.J. Deposit date: 2006-04-17 Release date: 2007-02-20 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (1.9 Å) Cite: Crystal structures of the DNA-binding domain of Escherichia coli proline utilization A flavoprotein and analysis of the role of Lys9 in DNA recognition. Protein Sci., 15, 2006
2K9S	Solution structure of dna binding domain of E. coli arac Descriptor: Arabinose operon regulatory protein Authors: Rodgers, M.E, Schleif, R.F. Deposit date: 2008-10-23 Release date: 2008-11-25 Last modified: 2024-05-08 Method: SOLUTION NMR Cite: Solution structure of the DNA binding domain of AraC protein. Proteins, 77, 2009
3CQ8	Ternary complex of the L415F mutant RB69 exo(-)polymerase Descriptor: CALCIUM ION, DNA (5'-D(*DAP*DCP*DAP*DGP*DGP*DTP*DAP*DAP*DGP*DCP*DAP*DGP*DTP*DCP*DCP*DGP*DCP*DG)-3'), DNA (5'-D(*DGP*DCP*DGP*DGP*DAP*DCP*DTP*DGP*DCP*DTP*DTP*DAP*DCP*DC)-3'), ... Authors: Zhong, X, Pedersen, L.C, Kunkel, T.A. Deposit date: 2008-04-02 Release date: 2008-09-02 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Characterization of a replicative DNA polymerase mutant with reduced fidelity and increased translesion synthesis capacity. Nucleic Acids Res., 36, 2008
2AHI	Structural Basis of DNA Recognition by p53 Tetramers (complex III) Descriptor: 5'-D(*CP*GP*GP*AP*CP*AP*TP*GP*TP*CP*CP*G)-3', Cellular tumor antigen p53, ZINC ION Authors: Kitayner, M, Rozenberg, H, Kessler, N, Rabinovich, D, Shakked, Z. Deposit date: 2005-07-28 Release date: 2006-07-11 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (1.85 Å) Cite: Structural Basis of DNA Recognition by p53 Tetramers Mol.Cell, 22, 2006
1GPC	CORE GP32, DNA-BINDING PROTEIN Descriptor: PROTEIN (CORE GP32), ZINC ION Authors: Shamoo, Y, Friedman, A.M, Parsons, M.R, Konigsberg, W.H, Steitz, T.A. Deposit date: 1995-06-01 Release date: 1995-10-15 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (2.2 Å) Cite: Crystal structure of a replication fork single-stranded DNA binding protein (T4 gp32) complexed to DNA. Nature, 376, 1995
5HRH	The crystal structure of AsfvPolX(H115F/R127A mutant): 1nt-gap(P) DNA2:dGTP ternary complex Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*GP*TP*TP*CP*TP*AP*TP*GP*TP*GP*TP*AP*CP*TP*CP*AP*C)-3'), DNA (5'-D(*GP*TP*GP*AP*GP*TP*AP*CP*A*)-3'), ... Authors: Chen, Y.Q, Zhang, J, Gan, J.H. Deposit date: 2016-01-23 Release date: 2017-01-18 Last modified: 2024-03-20 Method: X-RAY DIFFRACTION (3 Å) Cite: The crystal structure of Se-AsfvPolX(L52/163M mutant) in complex with 1nt-gap DNA1 To Be Published
1GT0	Crystal structure of a POU/HMG/DNA ternary complex Descriptor: 5'-D(*AP*TP*CP*CP*CP*AP*TP*TP*AP*GP* CP*AP*TP*CP*CP*AP*AP*AP*CP*AP*AP*AP*GP*A)-3', 5'-D(*TP*TP*CP*TP*TP*TP*GP*TP*TP*TP* GP*GP*AP* TP*GP*CP*TP*AP*AP*TP*GP*GP*GP*A)-3', OCTAMER-BINDING TRANSCRIPTION FACTOR 1, ... Authors: Remenyi, A, Wilmanns, M. Deposit date: 2002-01-09 Release date: 2003-01-30 Last modified: 2024-05-08 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Crystal Structure of a POU/Hmg/DNA Ternary Complex Suggests Differential Assembly of Oct4 and Sox2 on Two Enhancers Genes Dev., 17, 2003

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