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8E8H	Human DNA polymerase eta-DNA-rU-ended primer ternary mismatch complex:reaction with 10 mM Mn2+ for 300s Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DIPHOSPHATE, DNA (5'-D(*CP*AP*TP*TP*AP*TP*GP*AP*CP*GP*CP*T)-3'), ... Authors: Chang, C, Gao, Y. Deposit date: 2022-08-25 Release date: 2023-02-01 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2.13 Å) Cite: Primer terminal ribonucleotide alters the active site dynamics of DNA polymerase eta and reduces DNA synthesis fidelity. J.Biol.Chem., 299, 2023
8E88	Human DNA polymerase eta-DNA-rU-ended primer-dGMPNPP ternary mismatch complex with Mg2+ Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]guanosine, DNA (5'-D(*CP*AP*TP*TP*AP*TP*GP*AP*CP*GP*CP*T)-3'), DNA polymerase eta, ... Authors: Chang, C, Gao, Y. Deposit date: 2022-08-25 Release date: 2023-02-01 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Primer terminal ribonucleotide alters the active site dynamics of DNA polymerase eta and reduces DNA synthesis fidelity. J.Biol.Chem., 299, 2023
8E8K	Human DNA polymerase eta-DNA-rC-ended primer-dGMPNPP ternary mismatch complex with Mg2+ Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]guanosine, DNA (5'-D(*CP*AP*TP*TP*GP*TP*GP*AP*CP*GP*CP*T)-3'), DNA polymerase eta, ... Authors: Chang, C, Gao, Y. Deposit date: 2022-08-25 Release date: 2023-02-01 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Primer terminal ribonucleotide alters the active site dynamics of DNA polymerase eta and reduces DNA synthesis fidelity. J.Biol.Chem., 299, 2023
8E8E	Human DNA polymerase eta-DNA-rU-ended primer ternary mismatch complex:reaction with 10 mM Mn2+ for 90s Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DIPHOSPHATE, DNA (5'-D(*CP*AP*TP*TP*AP*TP*GP*AP*CP*GP*CP*T)-3'), ... Authors: Chang, C, Gao, Y. Deposit date: 2022-08-25 Release date: 2023-02-01 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2.05 Å) Cite: Primer terminal ribonucleotide alters the active site dynamics of DNA polymerase eta and reduces DNA synthesis fidelity. J.Biol.Chem., 299, 2023
7UBU	Crystal structure of ZMET2 in complex with hemimethylated CAG DNA and a histone H3Kc9me2 peptide Descriptor: 5MC SSDNA, C49 SSDNA, DNA (cytosine-5)-methyltransferase 1, ... Authors: Fang, J, Song, J. Deposit date: 2022-03-15 Release date: 2022-06-08 Last modified: 2024-10-23 Method: X-RAY DIFFRACTION (2.39 Å) Cite: Mechanistic basis for maintenance of CHG DNA methylation in plants. Nat Commun, 13, 2022
5DBB	Structure of human DNA polymerase beta Host-Guest complex with the dG base paired with a dA Descriptor: DNA (5'-D(*CP*CP*GP*AP*CP*GP*TP*CP*GP*CP*AP*TP*AP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*A)-3'), DNA (5'-D(P*GP*TP*CP*GP*G)-3'), ... Authors: Koag, M.C, Lee, S. Deposit date: 2015-08-21 Release date: 2015-11-11 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (2.25 Å) Cite: N7 Methylation Alters Hydrogen-Bonding Patterns of Guanine in Duplex DNA. J.Am.Chem.Soc., 137, 2015
5DB9	Structure of human DNA polymerase beta Host-Guest complex with the N7MG base paired with a dG Descriptor: DNA (5'-D(*CP*CP*GP*AP*CP*GP*TP*CP*GP*CP*AP*TP*GP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*(FMG)P*AP*TP*GP*CP*GP*A)-3'), DNA (5'-D(P*GP*TP*CP*GP*G)-3'), ... Authors: Koag, M.C, Lee, S. Deposit date: 2015-08-21 Release date: 2015-11-11 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (2.45 Å) Cite: N7 Methylation Alters Hydrogen-Bonding Patterns of Guanine in Duplex DNA. J.Am.Chem.Soc., 137, 2015
6WGI	Atomic model of the mutant OCCM (ORC-Cdc6-Cdt1-Mcm2-7 with Mcm6 WHD truncation) loaded on DNA at 10.5 A resolution Descriptor: Cell division control protein 6, Cell division cycle protein CDT1, DNA (34-MER), ... Authors: Yuan, Z, Schneider, S, Dodd, T, Riera, A, Bai, L, Yan, C, Magdalou, I, Ivanov, I, Stillman, B, Li, H, Speck, C. Deposit date: 2020-04-05 Release date: 2020-07-15 Last modified: 2024-03-06 Method: ELECTRON MICROSCOPY (10 Å) Cite: Structural mechanism of helicase loading onto replication origin DNA by ORC-Cdc6. Proc.Natl.Acad.Sci.USA, 117, 2020
1BDT	WILD TYPE GENE-REGULATING PROTEIN ARC/DNA COMPLEX Descriptor: DNA (5'-D(*AP*AP*TP*GP*AP*TP*AP*GP*AP*AP*GP*CP*AP*CP*TP*CP*TP*AP*CP*TP*AP*T)-3'), DNA (5'-D(*TP*AP*TP*AP*GP*TP*AP*GP*AP*GP*TP*GP*CP*TP*TP*CP*TP*AP*TP*CP*AP*T)-3'), PROTEIN (GENE-REGULATING PROTEIN ARC) Authors: Schilbach, J.F, Karzai, A.W, Raumann, B.E, Sauer, R.T. Deposit date: 1998-05-11 Release date: 1999-02-16 Last modified: 2023-08-02 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Origins of DNA-binding specificity: role of protein contacts with the DNA backbone. Proc.Natl.Acad.Sci.USA, 96, 1999
5T0U	CTCF ZnF2-7 and DNA complex structure Descriptor: DNA (5'-D(*CP*CP*TP*CP*AP*CP*TP*AP*GP*CP*GP*CP*CP*CP*CP*CP*TP*GP*CP*TP*GP*GP*C)-3'), DNA (5'-D(*GP*CP*CP*AP*GP*CP*AP*GP*GP*GP*GP*GP*CP*GP*CP*TP*AP*GP*TP*GP*AP*GP*G)-3'), Transcriptional repressor CTCF, ... Authors: Hashimoto, H, Wang, D, Cheng, X. Deposit date: 2016-08-16 Release date: 2017-05-24 Last modified: 2024-03-06 Method: X-RAY DIFFRACTION (3.199 Å) Cite: Structural Basis for the Versatile and Methylation-Dependent Binding of CTCF to DNA. Mol. Cell, 66, 2017
1FIX	THE STRUCTURE OF AN RNA/DNA HYBRID: A SUBSTRATE OF THE RIBONUCLEASE ACTIVITY OF HIV-1 REVERSE TRANSCRIPTASE Descriptor: DNA (5'-D(*GP*GP*CP*GP*CP*CP*CP*GP*AP*A)-3'), RNA (5'-R(*UP*UP*CP*GP*GP*GP*CP*GP*CP*C)-3') Authors: Horton, N.C, Finzel, B.C. Deposit date: 1996-10-24 Release date: 1996-12-11 Last modified: 2024-04-03 Method: X-RAY DIFFRACTION (2.3 Å) Cite: The structure of an RNA/DNA hybrid: a substrate of the ribonuclease activity of HIV-1 reverse transcriptase. J.Mol.Biol., 264, 1996
5T00	Human CTCF ZnF3-7 and methylated DNA complex Descriptor: DNA (5'-GCCAGCAGGGGG(5CM)GCTA-3'), DNA (5'-TAG(5CM)GCCCCCTGCTGGC-3'), Transcriptional repressor CTCF, ... Authors: Hashimoto, H, Wang, D, Cheng, X. Deposit date: 2016-08-15 Release date: 2017-05-24 Last modified: 2023-10-04 Method: X-RAY DIFFRACTION (2.19 Å) Cite: Structural Basis for the Versatile and Methylation-Dependent Binding of CTCF to DNA. Mol. Cell, 66, 2017
5DBA	Structure of human DNA polymerase beta Host-Guest complex with the dG base paired with a dT Descriptor: DNA (5'-D(*CP*CP*GP*AP*CP*GP*TP*CP*GP*CP*AP*TP*TP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*A)-3'), DNA (5'-D(P*GP*TP*CP*GP*G)-3'), ... Authors: Koag, M.C, Lee, S. Deposit date: 2015-08-21 Release date: 2015-11-11 Last modified: 2024-03-06 Method: X-RAY DIFFRACTION (1.965 Å) Cite: N7 Methylation Alters Hydrogen-Bonding Patterns of Guanine in Duplex DNA. J.Am.Chem.Soc., 137, 2015
2ZO2	Mouse NP95 SRA domain non-specific DNA complex Descriptor: DNA (5'-D(*DAP*DAP*DCP*DTP*DGP*DCP*DGP*DCP*DAP*DGP*DTP*DT)-3'), E3 ubiquitin-protein ligase UHRF1, PHOSPHATE ION 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 (3.09 Å) Cite: The SRA domain of UHRF1 flips 5-methylcytosine out of the DNA helix Nature, 455, 2008
7YPQ	Cryo-EM structure of one baculovirus LEF-3 molecule in complex with ssDNA Descriptor: DNA (5'-D(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3'), Lef3 Authors: Fu, Y, Rao, G, Yin, J, Li, Z, Cao, S. Deposit date: 2022-08-04 Release date: 2023-01-25 Last modified: 2024-07-03 Method: ELECTRON MICROSCOPY (3.1 Å) Cite: Structural transitions during the cooperative assembly of baculovirus single-stranded DNA-binding protein on ssDNA. Nucleic Acids Res., 50, 2022
7YPO	Cryo-EM structure of baculovirus LEF-3 in complex with ssDNA Descriptor: DNA (28-MER), Lef3 Authors: Yin, J, Fu, Y, Rao, G, Li, Z, Cao, S. Deposit date: 2022-08-04 Release date: 2023-01-25 Last modified: 2024-07-03 Method: ELECTRON MICROSCOPY (3.5 Å) Cite: Structural transitions during the cooperative assembly of baculovirus single-stranded DNA-binding protein on ssDNA. Nucleic Acids Res., 50, 2022
1CW0	CRYSTAL STRUCTURE ANALYSIS OF VERY SHORT PATCH REPAIR (VSR) ENDONUCLEASE IN COMPLEX WITH A DUPLEX DNA Descriptor: DNA (5'-D(*AP*CP*GP*TP*AP*CP*CP*TP*GP*GP*CP*T)-3'), DNA (5'-D(*AP*GP*C)-3'), DNA (5'-D(P*TP*AP*GP*GP*TP*AP*CP*GP*T)-3'), ... Authors: Tsutakawa, S.E, Jingami, H, Morikawa, K. Deposit date: 1999-08-25 Release date: 1999-12-12 Last modified: 2023-08-09 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Recognition of a TG mismatch: the crystal structure of very short patch repair endonuclease in complex with a DNA duplex. Cell(Cambridge,Mass.), 99, 1999
7W7L	Structure of NF-kB p52 homodimer bound to 13-mer A/T-centric P-Selectin kB DNA fragment Descriptor: DNA (5'-D(*AP*GP*GP*GP*GP*TP*TP*AP*CP*CP*CP*CP*C)-3'), DNA (5'-D(*GP*GP*GP*GP*GP*TP*AP*AP*CP*CP*CP*CP*T)-3'), Nuclear factor NF-kappa-B p52 subunit Authors: Meshcheryakov, V.A, Wang, V.Y.-F. Deposit date: 2021-12-05 Release date: 2022-01-26 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (3 Å) Cite: Structures of NF-kappa B p52 homodimer-DNA complexes rationalize binding mechanisms and transcription activation. Elife, 12, 2023
6LMR	Solution structure of cold shock domain and ssDNA complex Descriptor: DNA (5'-D(P*AP*AP*CP*AP*CP*CP*T)-3'), Y-box-binding protein 1 Authors: Fan, J, Yang, D. Deposit date: 2019-12-26 Release date: 2020-07-22 Last modified: 2024-05-15 Method: SOLUTION NMR Cite: Structural basis of DNA binding to human YB-1 cold shock domain regulated by phosphorylation. Nucleic Acids Res., 48, 2020
4YJ0	Crystal structure of the DM domain of human DMRT1 bound to 25mer target DNA Descriptor: DNA (25-MER), Doublesex- and mab-3-related transcription factor 1, ZINC ION Authors: Murphy, M.W, Lee, J.K, Rojo, S, Gearhart, M.D, Kurahashi, K, Banerjee, S, Loeuille, G, Bashamboo, A, McElreavey, K, Zarkower, D, Aihara, H, Bardwell, V.J. Deposit date: 2015-03-02 Release date: 2015-05-27 Last modified: 2024-06-19 Method: X-RAY DIFFRACTION (3.814 Å) Cite: An ancient protein-DNA interaction underlying metazoan sex determination. Nat.Struct.Mol.Biol., 22, 2015
5HBU	Structure of the E. coli nucleoid occlusion protein SlmA bound to DNA and the C-terminal tail of the cytoskeletal cell division protein FtsZ Descriptor: DNA (5'-D(*GP*TP*GP*AP*GP*TP*AP*CP*TP*CP*AP*C)-3'), FtsZ CTT peptide, Nucleoid occlusion factor SlmA Authors: Schumacher, M.A, Zeng, W. Deposit date: 2016-01-02 Release date: 2016-04-13 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Structures of the nucleoid occlusion protein SlmA bound to DNA and the C-terminal domain of the cytoskeletal protein FtsZ. Proc.Natl.Acad.Sci.USA, 113, 2016
6JIQ	Crystal structure of Streptococcus pneumoniae SP_0782 (residues 7-79) in complex with single-stranded DNA dT6 Descriptor: DNA (5'-D(*TP*TP*TP*TP*T)-3'), SP_0782 Authors: Fang, X, Lu, G, Li, S, Zhu, J, Yang, Y, Gong, P. Deposit date: 2019-02-22 Release date: 2019-11-27 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (1.67 Å) Cite: Structural insight into the length-dependent binding of ssDNA by SP_0782 from Streptococcus pneumoniae, reveals a divergence in the DNA-binding interface of PC4-like proteins. Nucleic Acids Res., 48, 2020
6JIP	Crystal structure of Streptococcus pneumoniae SP_0782 (residues 7-79) in complex with single-stranded DNA dT6 Descriptor: DNA (5'-D(*TP*TP*TP*TP*T)-3'), PENTAETHYLENE GLYCOL, SP_0782 Authors: Fang, X, Lu, G, Li, S, Zhu, J, Yang, Y, Gong, P. Deposit date: 2019-02-22 Release date: 2019-11-27 Last modified: 2024-03-27 Method: X-RAY DIFFRACTION (1.659 Å) Cite: Structural insight into the length-dependent binding of ssDNA by SP_0782 from Streptococcus pneumoniae, reveals a divergence in the DNA-binding interface of PC4-like proteins. Nucleic Acids Res., 48, 2020
1DPI	STRUCTURE OF LARGE FRAGMENT OF ESCHERICHIA COLI DNA POLYMERASE I COMPLEXED WITH D/TMP Descriptor: DNA POLYMERASE I KLENOW FRAGMENT, ZINC ION Authors: Beese, L, Ollis, D, Steitz, T. Deposit date: 1987-08-11 Release date: 1987-10-16 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (2.8 Å) Cite: Structure of large fragment of Escherichia coli DNA polymerase I complexed with dTMP. Nature, 313, 1985
1EGW	CRYSTAL STRUCTURE OF MEF2A CORE BOUND TO DNA Descriptor: DNA (5'-D(*AP*AP*AP*GP*CP*TP*AP*TP*TP*AP*TP*TP*AP*GP*CP*TP*T)-3'), DNA (5'-D(*TP*AP*AP*GP*CP*TP*AP*AP*TP*AP*AP*TP*AP*GP*CP*TP*T)-3'), MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, ... Authors: Santelli, E, Richmond, T.J. Deposit date: 2000-02-17 Release date: 2000-03-20 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (1.5 Å) Cite: Crystal structure of MEF2A core bound to DNA at 1.5 A resolution. J.Mol.Biol., 297, 2000

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