PDB: 45817 resultsInfo pagesStatus searchChemie searchBIRD

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6Z1A	Ternary complex of Staphylococcus aureus DNA gyrase with AMK12 and DNA Descriptor: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, CHLORIDE ION, DIMETHYL SULFOXIDE, ... Authors: Kolaric, A, Germe, T, Hrast, M, Stevenson, C.E.M, Lawson, D.M, Burton, N, Voros, J, Maxwell, A, Minovski, N, Anderluh, M. Deposit date: 2020-05-13 Release date: 2020-11-11 Last modified: 2024-01-24 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Potent DNA gyrase inhibitors bind asymmetrically to their target using symmetrical bifurcated halogen bonds. Nat Commun, 12, 2021
3BEP	Structure of a sliding clamp on DNA Descriptor: 1-(3-hydroxypropyl)-2-{(1E,3E,5E)-5-[1-(3-hydroxypropyl)-3,3-dimethyl-1,3-dihydro-2H-indol-2-ylidene]penta-1,3-dien-1-y l}-3,3-dimethyl-3H-indolium, DNA (5'-D(*DTP*DTP*DTP*DTP*DAP*DTP*DAP*DCP*DGP*DAP*DTP*DGP*DGP*DG)-3'), DNA (5'-D(P*DCP*DCP*DCP*DAP*DTP*DCP*DGP*DTP*DAP*DT)-3'), ... Authors: Georgescu, R.E, Kim, S.S, Yurieva, O, Kuriyan, J, Kong, X.-P, O'Donnell, M. Deposit date: 2007-11-19 Release date: 2008-01-29 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (1.92 Å) Cite: Structure of a sliding clamp on DNA Cell(Cambridge,Mass.), 132, 2008
5LGY	Lysine 120-acetylated P53 DNA binding domain in a complex with the BAX response element. Descriptor: Cellular tumor antigen p53, DNA (5'-D(*AP*GP*GP*CP*TP*TP*GP*TP*CP*TP*CP*TP*AP*AP*CP*TP*TP*GP*TP*GP*A)-3'), DNA (5'-D(*TP*CP*AP*CP*AP*AP*GP*TP*TP*AP*GP*AP*GP*AP*CP*AP*AP*GP*CP*CP*T)-3'), ... Authors: Arbely, E, Vainer, R. Deposit date: 2016-07-08 Release date: 2016-07-27 Last modified: 2024-01-10 Method: X-RAY DIFFRACTION (2.92 Å) Cite: Structural Basis for p53 Lys120-Acetylation-Dependent DNA-Binding Mode. J.Mol.Biol., 428, 2016
4XID	AntpHD with 15bp DNA duplex Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, DNA (5'-D(*AP*GP*AP*AP*AP*GP*CP*CP*AP*TP*TP*AP*GP*AP*G)-3'), DNA (5'-D(*TP*CP*TP*CP*TP*AP*AP*TP*GP*GP*CP*TP*TP*TP*C)-3'), ... Authors: White, M.A, Zandarashvili, L, Iwahara, J. Deposit date: 2015-01-06 Release date: 2015-11-25 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (2.701 Å) Cite: Entropic Enhancement of Protein-DNA Affinity by Oxygen-to-Sulfur Substitution in DNA Phosphate. Biophys.J., 109, 2015
2H1K	Crystal structure of the Pdx1 homeodomain in complex with DNA Descriptor: 15-mer DNA, Pancreatic and duodenal homeobox 1 Authors: Longo, A, Guanga, G.P, Rose, R.B. Deposit date: 2006-05-16 Release date: 2007-03-20 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (2.42 Å) Cite: Structural basis for induced fit mechanisms in DNA recognition by the pdx1 homeodomain Biochemistry, 46, 2007
7CFV	Solution NMR structure of DnaX mini intein from Spirulina platensis Descriptor: Spl DnaX mini-intein Authors: Boral, S, Lee, W, De, S. Deposit date: 2020-06-28 Release date: 2020-12-23 Last modified: 2024-05-15 Method: SOLUTION NMR Cite: Structural, Dynamic, and Functional Characterization of a DnaX Mini-intein Derived from Spirulina platensis Provides Important Insights into Intein-Mediated Catalysis of Protein Splicing. Biochemistry, 59, 2020
7N2M	Crystal structure of DNA polymerase alpha catalytic core in complex with dCTP and template/primer having T-C mismatch at the post-insertion site Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*AP*T*AP*GP*TP*CP*GP*CP*TP*CP*CP*AP*GP*GP*C)-3'), DNA polymerase alpha catalytic subunit, ... Authors: Tahirov, T.H, Baranovskiy, A.G, Babayeva, N.D. Deposit date: 2021-05-29 Release date: 2022-04-20 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (2.9 Å) Cite: Structural and functional insight into mismatch extension by human DNA polymerase alpha. Proc.Natl.Acad.Sci.USA, 119, 2022
4XIC	ANTPHD WITH 15BP di-thioate modified DNA DUPLEX Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, DNA (5'-D(*AP*GP*AP*AP*AP*GP*CP*(C2S)P*AP*TP*TP*AP*GP*AP*G)-3'), DNA (5'-D(*TP*CP*TP*CP*TP*AP*AP*TP*GP*GP*CP*TP*TP*TP*C)-3'), ... Authors: White, M.A, Zandarashvili, L, Iwahara, J. Deposit date: 2015-01-06 Release date: 2015-11-25 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (2.69 Å) Cite: Entropic Enhancement of Protein-DNA Affinity by Oxygen-to-Sulfur Substitution in DNA Phosphate. Biophys.J., 109, 2015
8RK2	Human Replication protein A (RPA; trimeric core) - ssDNA complex Descriptor: Replication protein A 14 kDa subunit, Replication protein A 32 kDa subunit, Replication protein A 70 kDa DNA-binding subunit, ... Authors: Liang, C.C, West, S.C. Deposit date: 2023-12-22 Release date: 2024-04-24 Last modified: 2024-05-29 Method: ELECTRON MICROSCOPY (3.2 Å) Cite: Mechanism of single-stranded DNA annealing by RAD52-RPA complex. Nature, 629, 2024
6MEC	Structure of a group II intron retroelement after DNA integration Descriptor: MAGNESIUM ION, Maturase reverse transcriptase, SODIUM ION, ... Authors: Haack, D, Yan, X, Zhang, C, Hingey, J, Lyumkis, D, Baker, T.S, Toor, N. Deposit date: 2018-09-06 Release date: 2019-08-14 Last modified: 2024-03-13 Method: ELECTRON MICROSCOPY (3.6 Å) Cite: Cryo-EM Structures of a Group II Intron Reverse Splicing into DNA. Cell, 178, 2019
4RNM	Crystal structure of human polymerase eta inserting dAMPnPP opposite DNA template containing an abasic site Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]adenosine, DNA Primar: AGCGTCAT, DNA Template: CAT(3DR)ATGACGCT, ... Authors: Patra, A, Egli, M. Deposit date: 2014-10-24 Release date: 2015-02-18 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.144 Å) Cite: Structural and Kinetic Analysis of Nucleoside Triphosphate Incorporation Opposite an Abasic Site by Human Translesion DNA Polymerase eta. J.Biol.Chem., 290, 2015
4TYN	DEAD-box helicase Mss116 bound to ssDNA and ADP-BeF Descriptor: ADENOSINE-5'-DIPHOSPHATE, ATP-dependent RNA helicase MSS116, mitochondrial, ... Authors: Mallam, A.L, Sidote, D.J, Lambowitz, A.M. Deposit date: 2014-07-08 Release date: 2014-12-31 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (2.959 Å) Cite: Molecular insights into RNA and DNA helicase evolution from the determinants of specificity for a DEAD-box RNA helicase. Elife, 3, 2014
1JJ8	Testing the Water-Mediated HIN Recombinase DNA Recognition by Systematic Mutations Descriptor: 5'-D(*AP*TP*CP*TP*TP*AP*TP*CP*AP*AP*AP*AP*AP*C)-3', 5'-D(*TP*GP*(5IT)P*TP*TP*TP*TP*GP*AP*TP*AP*AP*GP*A)-3', DNA-INVERTASE HIN Authors: Chiu, T.K, Sohn, C, Johnson, R.C, Dickerson, R.E. Deposit date: 2001-07-03 Release date: 2002-02-22 Last modified: 2024-04-03 Method: X-RAY DIFFRACTION (2.75 Å) Cite: Testing water-mediated DNA recognition by the Hin recombinase. EMBO J., 21, 2002
1IJW	Testing the Water-Mediated Hin Recombinase DNA Recognition by Systematic Mutations. Descriptor: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 5'-D(*AP*TP*(CBR)P*TP*TP*AP*TP*CP*AP*AP*AP*AP*AP*C)-3', 5'-D(*TP*GP*TP*TP*TP*TP*TP*GP*AP*TP*AP*AP*GP*A)-3', ... Authors: Chiu, T.K, Sohn, C, Johnson, R.C, Dickerson, R.E. Deposit date: 2001-04-30 Release date: 2002-02-22 Last modified: 2024-04-03 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Testing water-mediated DNA recognition by the Hin recombinase. EMBO J., 21, 2002
1JJ6	Testing the Water-Mediated Hin Recombinase DNA Recognition by Systematic Mutations. Descriptor: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 5'-D(*AP*TP*CP*TP*TP*AP*TP*CP*AP*AP*AP*AP*AP*C)-3', 5'-D(*TP*GP*TP*(5IT)P*TP*TP*TP*GP*AP*TP*AP*AP*GP*A)-3', ... Authors: Chiu, T.K, Sohn, C, Johnson, R.C, Dickerson, R.E. Deposit date: 2001-07-03 Release date: 2002-02-22 Last modified: 2024-04-03 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Testing water-mediated DNA recognition by the Hin recombinase. EMBO J., 21, 2002
1JKO	Testing the Water-Mediated HIN Recombinase DNA Recognition by Systematic Mutations Descriptor: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 5'-D(*AP*TP*CP*TP*TP*AP*CP*CP*AP*AP*AP*AP*AP*C)-3', 5'-D(*TP*GP*TP*TP*TP*TP*TP*GP*GP*TP*AP*AP*GP*A)-3', ... Authors: Chiu, T.K, Sohn, C, Johnson, R.C, Dickerson, R.E. Deposit date: 2001-07-12 Release date: 2002-02-22 Last modified: 2023-08-16 Method: X-RAY DIFFRACTION (2.24 Å) Cite: Testing water-mediated DNA recognition by the Hin recombinase. EMBO J., 21, 2002
1JKR	Testing the Water-Mediated HIN Recombinase DNA Recognition by Systematic Mutations Descriptor: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 5'-D(*AP*TP*CP*TP*TP*GP*TP*CP*AP*AP*AP*AP*AP*C)-3', 5'-D(*TP*GP*TP*TP*TP*TP*TP*GP*AP*CP*AP*AP*GP*A)-3', ... Authors: Chiu, T.K, Sohn, C, Johnson, R.C, Dickerson, R.E. Deposit date: 2001-07-13 Release date: 2002-02-22 Last modified: 2023-08-16 Method: X-RAY DIFFRACTION (2.28 Å) Cite: Testing water-mediated DNA recognition by the Hin recombinase. EMBO J., 21, 2002
1JKQ	Testing the Water-Mediated HIN Recombinase DNA Recognition by Systematic Mutations Descriptor: 5'-D(*AP*TP*CP*TP*TP*AP*TP*AP*AP*AP*AP*AP*AP*C)-3', 5'-D(*TP*GP*TP*TP*TP*TP*TP*TP*AP*TP*AP*AP*GP*A)-3', DNA-INVERTASE HIN Authors: Chiu, T.K, Sohn, C, Johnson, R.C, Dickerson, R.E. Deposit date: 2001-07-13 Release date: 2002-02-22 Last modified: 2023-08-16 Method: X-RAY DIFFRACTION (2.86 Å) Cite: Testing water-mediated DNA recognition by the Hin recombinase. EMBO J., 21, 2002
1JKP	Testing the Water-Mediated HIN Recombinase DNA Recognition by Systematic Mutations Descriptor: 5'-D(*AP*TP*CP*TP*TP*CP*TP*CP*AP*AP*AP*AP*AP*C)-3', 5'-D(*TP*GP*TP*TP*TP*TP*TP*GP*AP*GP*AP*AP*GP*A)-3', DNA-INVERTASE HIN Authors: Chiu, T.K, Sohn, C, Johnson, R.C, Dickerson, R.E. Deposit date: 2001-07-13 Release date: 2002-02-22 Last modified: 2023-08-16 Method: X-RAY DIFFRACTION (2.8 Å) Cite: Testing water-mediated DNA recognition by the Hin recombinase. EMBO J., 21, 2002
8UCU	Partial DNA termination subcomplex of Xenopus laevis DNA polymerase alpha-primase Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA polymerase alpha catalytic subunit, DNA template, ... Authors: Mullins, E.A, Chazin, W.J, Eichman, B.F. Deposit date: 2023-09-27 Release date: 2023-10-11 Last modified: 2024-05-29 Method: ELECTRON MICROSCOPY (2.85 Å) Cite: A mechanistic model of primer synthesis from catalytic structures of DNA polymerase alpha-primase. Nat.Struct.Mol.Biol., 31, 2024
8UCW	Complete DNA termination subcomplex 2 of Xenopus laevis DNA polymerase alpha-primase Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA polymerase alpha catalytic subunit, DNA template, ... Authors: Mullins, E.A, Chazin, W.C, Eichman, B.F. Deposit date: 2023-09-27 Release date: 2023-10-11 Last modified: 2024-05-29 Method: ELECTRON MICROSCOPY (3.64 Å) Cite: A mechanistic model of primer synthesis from catalytic structures of DNA polymerase alpha-primase. Nat.Struct.Mol.Biol., 31, 2024
8FLJ	Cas1-Cas2/3 integrase and IHF bound to CRISPR leader, repeat and foreign DNA Descriptor: CRISPR leader and repeat, anti-sense strand of DNA, CRISPR leader, ... Authors: Santiago-Frangos, A, Henriques, W.S, Wiegand, T, Gauvin, C, Buyukyoruk, M, Neselu, K, Eng, E.T, Lander, G.C, Wiedenheft, B. Deposit date: 2022-12-21 Release date: 2023-09-06 Last modified: 2023-11-22 Method: ELECTRON MICROSCOPY (3.48 Å) Cite: Structure reveals why genome folding is necessary for site-specific integration of foreign DNA into CRISPR arrays. Nat.Struct.Mol.Biol., 30, 2023
1WD0	Crystal structures of the hyperthermophilic chromosomal protein Sac7d in complex with DNA decamers Descriptor: 5'-D(*CP*CP*TP*AP*TP*AP*TP*AP*GP*G)-3', DNA-binding proteins 7a/7b/7d Authors: Ko, T.-P, Chu, H.-M, Chen, C.-Y, Chou, C.-C, Wang, A.H.-J. Deposit date: 2004-05-10 Release date: 2004-08-03 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (1.9 Å) Cite: Structures of the hyperthermophilic chromosomal protein Sac7d in complex with DNA decamers. Acta Crystallogr.,Sect.D, 60, 2004
4RU9	Crystal structure of human DNA polymerase eta inserting dCMPNPP opposite a MeFapy-dG adducted DNA template Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]cytidine, DNA polymerase eta, MAGNESIUM ION, ... Authors: Patra, A, Egli, M. Deposit date: 2014-11-18 Release date: 2015-08-05 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.65 Å) Cite: Structural Basis for Error-Free Bypass of the 5-N-Methylformamidopyrimidine-dG Lesion by Human DNA Polymerase eta and Sulfolobus solfataricus P2 Polymerase IV. J.Am.Chem.Soc., 137, 2015
3LDS	Crystal structure of RB69 gp43 with DNA and dATP opposite 8-oxoG Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, DNA (5'-D(*CP*AP*(8OG)P*CP*TP*TP*AP*TP*GP*AP*CP*AP*GP*CP*CP*GP*CP*G)-3'), DNA (5'-D(*GP*CP*GP*GP*CP*TP*GP*TP*CP*AP*TP*AP*AP*(DDG))-3'), ... Authors: Hogg, M, Midkiff, J, Rudnicki, J, Reha-Krantz, L, Doublie, S, Wallace, S.S. Deposit date: 2010-01-13 Release date: 2010-06-02 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (3 Å) Cite: Kinetics of mismatch formation opposite lesions by the replicative DNA polymerase from bacteriophage RB69. Biochemistry, 49, 2010

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