PDB: 45953 resultsInfo pagesStatus searchChemie searchBIRD

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3TUO	Crystal structure of N-terminal domain of DNA-binding protein satb1 Descriptor: DNA-binding protein SATB1 Authors: Wang, Z, Yang, X, Long, J, Shen, Y. Deposit date: 2011-09-17 Release date: 2012-02-01 Last modified: 2024-03-20 Method: X-RAY DIFFRACTION (1.697 Å) Cite: The structural basis for the oligomerization of the N-terminal domain of SATB1 Nucleic Acids Res., 40, 2012
2LXQ	Monomeric PilE G-Quadruplex DNA from Neisseria Gonorrhoeae Descriptor: DNA (5'-D(*TP*AP*GP*GP*GP*TP*GP*GP*GP*TP*TP*GP*GP*GP*TP*GP*GP*GP*GP*AP*AP*T)-3') Authors: Kuryavyi, V.V, Patel, D.J. Deposit date: 2012-08-30 Release date: 2012-11-28 Last modified: 2024-05-01 Method: SOLUTION NMR Cite: RecA-Binding pilE G4 Sequence Essential for Pilin Antigenic Variation Forms Monomeric and 5' End-Stacked Dimeric Parallel G-Quadruplexes. Structure, 20, 2012
8F2Y	Structure of an alternating AT dodecamer: 5'-CGCGATATCGCG-3 Descriptor: DNA (5'-D(*CP*GP*CP*GP*AP*TP*AP*TP*CP*GP*CP*G)-3'), MAGNESIUM ION Authors: Ogbonna, E.N, Wilson, W.D. Deposit date: 2022-11-09 Release date: 2023-02-22 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (1.78 Å) Cite: X-ray Structure Characterization of the Selective Recognition of AT Base Pair Sequences. Acs Bio Med Chem Au, 3, 2023
8F94	Structure of an alternating AT 16-mer: 5'-GCTGGATATATCCAGC-3 Descriptor: CALCIUM ION, DNA 16-mer Authors: Terrell, J.R, Ogbonna, E.N, Wilson, W.D. Deposit date: 2022-11-23 Release date: 2023-02-22 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (1.08 Å) Cite: X-ray Structure Characterization of the Selective Recognition of AT Base Pair Sequences. Acs Bio Med Chem Au, 3, 2023
5B2I	Human nucleosome containing CpG unmethylated DNA Descriptor: DNA (146-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... Authors: Fujii, Y, Wakamori, M, Umehara, T, Yokoyama, S. Deposit date: 2016-01-16 Release date: 2016-06-15 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (3 Å) Cite: Crystal structure of human nucleosome core particle containing enzymatically introduced CpG methylation. Febs Open Bio, 6, 2016
8FB4	Structure of an alternating AT 16-mer bound by diamidine DB1476: 5'-GCTGGATATATCCAGC-3 Descriptor: 4,4'-(1H-benzimidazole-2,6-diyl)di(benzene-1-carboximidamide), CALCIUM ION, DNA (5'-D(*GP*CP*TP*GP*GP*AP*TP*AP*TP*AP*TP*CP*CP*AP*GP*C)-3') Authors: Terrell, J.R, Ogbonna, E.N, Wilson, W.D. Deposit date: 2022-11-29 Release date: 2023-02-22 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (1.49 Å) Cite: X-ray Structure Characterization of the Selective Recognition of AT Base Pair Sequences. Acs Bio Med Chem Au, 3, 2023
360D	STRUCTURE OF 2,5-BIS{[4-(N-ETHYLAMIDINO)PHENYL]}FURAN COMPLEXED TO 5'-D(CPGPCPGPAPAPTPTPCPGPCPG)-3'. A MINOR GROOVE DRUG COMPLEX, SHOWING PATTERNS OF GROOVE HYDRATION Descriptor: DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3'), MAGNESIUM ION, N,N'-(furan-2,5-diylbis{benzene-4,1-diyl[(Z)-aminomethylylidene]})diethanaminium Authors: Guerri, A, Simpson, I.J, Neidle, S. Deposit date: 1997-10-29 Release date: 1998-07-16 Last modified: 2023-08-02 Method: X-RAY DIFFRACTION (1.85 Å) Cite: Visualisation of extensive water ribbons and networks in a DNA minor-groove drug complex. Nucleic Acids Res., 26, 1998
5B2J	Human nucleosome containing CpG methylated DNA Descriptor: DNA (146-MER), Histone H2A type 1-B/E, Histone H2B type 1-J, ... Authors: Fujii, Y, Wakamori, M, Umehara, T, Yokoyama, S. Deposit date: 2016-01-18 Release date: 2016-06-15 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Crystal structure of human nucleosome core particle containing enzymatically introduced CpG methylation. Febs Open Bio, 6, 2016
7VJM	Aca1 in complex with 19bp palindromic DNA substrate Descriptor: DNA (5'-D(*AP*TP*TP*AP*GP*GP*CP*AP*CP*AP*TP*TP*GP*TP*GP*CP*CP*TP*AP*T)-3'), DNA (5'-D(*TP*AP*TP*AP*GP*GP*CP*AP*CP*AP*AP*TP*GP*TP*GP*CP*CP*TP*AP*A)-3'), anti-CRISPR-associated protein Aca1 Authors: Liu, Y.H, Zhang, L.S, Wu, B.X, Huang, H.D. Deposit date: 2021-09-28 Release date: 2021-10-13 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (3 Å) Cite: Structural basis for anti-CRISPR repression mediated by bacterial operon proteins Aca1 and Aca2. J.Biol.Chem., 297, 2021
3PX7	Crystal Structure of covalent complex of topoisomerase 1A with substrate Descriptor: DNA 5'-D(*A*AP*TP*GP*CP*GP*CP*T)-3', DNA 5'-D(*TP*TP*GP*GP*G)-3', DNA topoisomerase, ... Authors: Zhang, Z, Tse-dinh, Y.C, Cheng, B. Deposit date: 2010-12-09 Release date: 2011-04-20 Last modified: 2017-11-08 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Structure of E. coli Topoisomerase I Trapped as Covalent Complex Intermediate with Cleaved DNA To be Published
3V9X	Crystal structure of RNase T in complex with a preferred ssDNA (AAA) with two Mg in the active site Descriptor: DNA (5'-D(*TP*TP*AP*TP*AP*AP*A)-3'), MAGNESIUM ION, Ribonuclease T Authors: Hsiao, Y.-Y, Yuan, H.S. Deposit date: 2011-12-28 Release date: 2012-07-11 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (1.9 Å) Cite: How an exonuclease decides where to stop in trimming of nucleic acids: crystal structures of RNase T-product complexes Nucleic Acids Res., 40, 2012
1V0D	Crystal Structure of Caspase-activated DNase (CAD) Descriptor: DNA FRAGMENTATION FACTOR 40 KDA SUBUNIT, LEAD (II) ION, MAGNESIUM ION, ... Authors: Woo, E.-J, Kim, Y.-G, Kim, M.-S, Han, W.-D, Shin, S, Oh, B.-H. Deposit date: 2004-03-26 Release date: 2004-05-21 Last modified: 2024-05-08 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Structural Mechanism for Inactivation and Activation of Cad/Dff40 in the Apoptotic Pathway Mol.Cell, 14, 2004
401D	STRUCTURE OF A DNA IN LOW SALT CONDITIONS D(GACCGCGGTC) Descriptor: DNA (5'-D(*GP*AP*CP*CP*GP*CP*GP*GP*TP*C)-3') Authors: Luo, M, Finley, J.B. Deposit date: 1998-06-02 Release date: 1998-07-06 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.2 Å) Cite: X-ray crystal structures of half the human papilloma virus E2 binding site: d(GACCGCGGTC). Nucleic Acids Res., 26, 1998
2LHO	Solution Structure of a DNA duplex Containing an Unnatural, Hydrophobic Base Pair Descriptor: DNA (5'-D(*CP*GP*TP*TP*TP*CP*(LHO)P*TP*TP*CP*TP*C)-3'), DNA (5'-D(*GP*AP*GP*AP*AP*(MM7)P*GP*AP*AP*AP*CP*G)-3') Authors: Malyshev, D.A, Pfaff, D.A, Ippoliti, S.L, Hwang, G.T, Dwyer, T.J, Romesberg, F.E. Deposit date: 2011-08-12 Release date: 2012-07-04 Last modified: 2024-05-01 Method: SOLUTION NMR Cite: Solution structure, mechanism of replication, and optimization of an unnatural base pair. Chemistry, 16, 2010
4CS5	Crystal Structure of PCNA from Litopenaeus vannamei Descriptor: PROLIFERATING CELL NUCLEAR ANTIGEN Authors: Carrasco-Miranda, J.S, Lopez-Zavala, A.A, De-La-Mora, E, Rudino-Pinera, E, Brieba, L.G, Sotelo-Mundo, R.R. Deposit date: 2014-03-04 Release date: 2014-04-23 Last modified: 2023-12-20 Method: X-RAY DIFFRACTION (3 Å) Cite: Crystal Structure of the Shrimp Proliferating Cell Nuclear Antigen: Structural Complementarity with Wssv DNA Polymerase Pip-Box. Plos One, 9, 2014
1OPQ	NMR structure of unmethylated GATC site Descriptor: 5'-D(*CP*GP*CP*AP*GP*AP*TP*CP*TP*CP*GP*C)-3', 5'-D(*GP*CP*GP*AP*GP*AP*TP*CP*TP*GP*CP*G)-3' Authors: Bae, S.-H, Cheong, H.-K, Kang, S, Hwang, D.S, Cheong, C, Choi, B.-S. Deposit date: 2003-03-06 Release date: 2004-04-27 Last modified: 2024-05-29 Method: SOLUTION NMR Cite: Structure and dynamics of hemimethylated GATC sites: implications for DNA-SeqA recognition J.Biol.Chem., 278, 2003
8D4Y	C-terminal SANT-SLIDE domain of human Chromodomain-helicase-DNA-binding protein 4 (CHD4) Descriptor: Chromodomain-helicase-DNA-binding protein 4 Authors: Moghaddas Sani, H, Deshpande, C.N, Panjikar, S, Patel, K, Mackay, J.P. Deposit date: 2022-06-03 Release date: 2022-12-21 Last modified: 2024-04-03 Method: X-RAY DIFFRACTION (2.9 Å) Cite: The role of auxiliary domains in modulating CHD4 activity suggests mechanistic commonality between enzyme families. Nat Commun, 13, 2022
1OQ2	NMR structure of hemimethylated GATC site Descriptor: 5'-D(*CP*GP*CP*AP*GP*(6MA)P*TP*CP*TP*CP*GP*C)-3', 5'-D(*GP*CP*GP*AP*GP*AP*TP*CP*TP*GP*CP*G)-3' Authors: Bae, S.-H, Cheong, H.-K, Kang, S, Hwang, D.S, Cheong, C, Choi, B.-S. Deposit date: 2003-03-07 Release date: 2004-04-27 Last modified: 2024-05-29 Method: SOLUTION NMR Cite: Structure and dynamics of hemimethylated GATC sites: implications for DNA-SeqA recognition J.Biol.Chem., 278, 2003
4ESJ	RESTRICTION ENDONUCLEASE DpnI IN COMPLEX WITH TARGET DNA Descriptor: AZIDE ION, DNA (5'-D(*CP*TP*GP*GP*(6MA)P*TP*CP*CP*AP*G)-3'), GLYCEROL, ... Authors: Siwek, W, Czapinska, H, Bochtler, M, Bujnicki, J.M, Skowronek, K. Deposit date: 2012-04-23 Release date: 2012-06-13 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.05 Å) Cite: Crystal structure and mechanism of action of the N6-methyladenine-dependent type IIM restriction endonuclease R.DpnI. Nucleic Acids Res., 40, 2012
1VT5	THE CRYSTAL STRUCTURE OF D(CCCCGGGG): A NEW A-FORM VARIANT WITH AN EXTENDED BACKBONE CONFORMATION Descriptor: DNA (5'-D(*CP*CP*CP*CP*GP*GP*GP*G)-3') Authors: Haran, T.E, Shakked, Z, Wang, A.H.-J, Rich, A. Deposit date: 1988-08-18 Release date: 2011-07-13 Last modified: 2023-12-27 Method: X-RAY DIFFRACTION (2.25 Å) Cite: The crystal structure of d(CCCCGGGG): a new A-form variant with an extended backbone conformation. J.Biomol.Struct.Dyn., 5, 1987
6EN8	SaFadR in complex with dsDNA Descriptor: DNA (5'-D(*CP*TP*AP*CP*TP*TP*GP*AP*TP*TP*TP*TP*TP*GP*AP*GP*TP*CP*GP*AP*C)-3'), DNA (5'-D(*GP*TP*CP*GP*AP*CP*TP*CP*AP*AP*AP*AP*AP*TP*CP*AP*AP*GP*TP*AP*G)-3'), Transcriptional regulator TetR family, ... Authors: Valegard, K. Deposit date: 2017-10-04 Release date: 2018-10-31 Last modified: 2024-01-17 Method: X-RAY DIFFRACTION (3.29 Å) Cite: A TetR-family transcription factor regulates fatty acid metabolism in the archaeal model organism Sulfolobus acidocaldarius. Nat Commun, 10, 2019
6AEB	Crystal structure of xCas9 in complex with sgRNA and target DNA (AAG PAM) Descriptor: DNA (25-MER), DNA (5'-D(*AP*AP*AP*AP*AP*GP*TP*AP*TP*TP*G)-3'), DNA Nuclease, ... Authors: Guo, M, Ren, K, Zhu, Y, Huang, Z. Deposit date: 2018-08-04 Release date: 2019-03-27 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (3.004 Å) Cite: Structural insights into a high fidelity variant of SpCas9. Cell Res., 29, 2019
6KDM	HIV-1 reverse transcriptase with Q151M/Y115F/F116Y:DNA:entecavir 5'-triphosphate ternary complex Descriptor: DNA/RNA (38-MER), GLYCEROL, HIV-1 RT p51 subunit, ... Authors: Yasutake, Y, Hattori, S.I, Tamura, N, Maeda, K. Deposit date: 2019-07-02 Release date: 2020-03-04 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (2.32 Å) Cite: Structural features in common of HBV and HIV-1 resistance against chirally-distinct nucleoside analogues entecavir and lamivudine. Sci Rep, 10, 2020
6KDJ	HIV-1 reverse transcriptase with Q151M/Y115F/F116Y:DNA:lamivudine 5'-triphosphate ternary complex Descriptor: DNA/RNA (38-MER), GLYCEROL, HIV-1 RT p51 subunit, ... Authors: Yasutake, Y, Hattori, S.I, Tamura, N, Maeda, K. Deposit date: 2019-07-02 Release date: 2020-03-04 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (2.51 Å) Cite: Structural features in common of HBV and HIV-1 resistance against chirally-distinct nucleoside analogues entecavir and lamivudine. Sci Rep, 10, 2020
6KDO	HIV-1 reverse transcriptase with Q151M/Y115F/F116Y/M184V/F160M:DNA:lamivudine 5'-triphosphate ternary complex Descriptor: DNA/RNA (38-MER), GLYCEROL, HIV-1 RT p51 subunit, ... Authors: Yasutake, Y, Hattori, S.I, Tamura, N, Maeda, K. Deposit date: 2019-07-02 Release date: 2020-03-04 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (2.573 Å) Cite: Structural features in common of HBV and HIV-1 resistance against chirally-distinct nucleoside analogues entecavir and lamivudine. Sci Rep, 10, 2020

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