PDB: 45817 resultsInfo pagesStatus searchChemie searchBIRD

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7SGC	Replication Initiator Protein REPE54 and cognate DNA sequence with terminal five prime phosphates. Descriptor: DNA (5'-D(P*CP*CP*TP*GP*TP*GP*AP*CP*AP*AP*AP*TP*TP*GP*CP*CP*CP*TP*CP*AP*G)-3'), DNA (5'-D(P*CP*TP*GP*AP*GP*GP*GP*CP*AP*AP*TP*TP*TP*GP*TP*CP*AP*CP*AP*GP*G)-3'), MAGNESIUM ION, ... Authors: Ward, A.R, Snow, C.D. Deposit date: 2021-10-05 Release date: 2021-10-13 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2.7 Å) Cite: Stabilizing DNA-Protein Co-Crystals via Intra-Crystal Chemical Ligation of the DNA Crystals, 12, 2022
1KVH	NCSi-gb-bulge-DNA complex induced formation of a DNA bulge structure by a molecular wedge ligand-post-activated neocarzinostatin chromophore Descriptor: 5'-D(*CP*CP*CP*GP*AP*TP*GP*C)-3', 5'-D(*GP*CP*AP*AP*TP*TP*CP*GP*GP*G)-3', SPIRO[[7-METHOXY-5-METHYL-1,2-DIHYDRO-NAPHTHALENE]-3,1'-[5-HYDROXY-9-[2-METHYLAMINO-2,6-DIDEOXYGALACTOPYRANOSYL-OXY]-5-(2-OXO-[1,3]DIOXOLAN-4-YL)-3A,5,9,9A-TETRAHYDRO-3H-1-OXA-CYCLOPENTA[A]-S-INDACEN-2-ONE]] Authors: Gao, X, Stassinopoulos, A, Ji, J, Kwon, Y, Bare, S, Goldberg, I.H. Deposit date: 2002-01-26 Release date: 2002-06-19 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: Induced formation of a DNA bulge structure by a molecular wedge ligand-postactivated neocarzinostatin chromophore. Biochemistry, 41, 2002
5X9Y	Crystal structure of the ATPase domain from bacterial mismatch repair endonuclease Aquifex aeolicus MutL. Descriptor: DI(HYDROXYETHYL)ETHER, DNA mismatch repair protein MutL Authors: Fukui, K, Yano, T. Deposit date: 2017-03-10 Release date: 2017-08-30 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (3.443 Å) Cite: Crystal structure and DNA-binding property of the ATPase domain of bacterial mismatch repair endonuclease MutL from Aquifex aeolicus Biochim. Biophys. Acta, 1865, 2017
2P0J	Structure of restriction endonuclease BstYI bound to non-cognate DNA Descriptor: 5'-D(*AP*TP*GP*AP*AP*TP*CP*CP*AP*TP*A)-3', 5'-D(*TP*AP*TP*GP*GP*AP*TP*TP*CP*AP*T)-3', BstYI Authors: Townson, S.A, Samuelson, J.C, Bao, Y, Xu, S.Y, Aggarwal, A.K. Deposit date: 2007-02-28 Release date: 2007-05-01 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (2.1 Å) Cite: BstYI Bound to Noncognate DNA Reveals a "Hemispecific" Complex: Implications for DNA Scanning. Structure, 15, 2007
7RZM	Crystal Structure of dnaN DNA polymerase III beta subunit from Stenotrophomonas maltophilia K279a Descriptor: DNA polymerase III subunit beta Authors: Seattle Structural Genomics Center for Infectious Disease (SSGCID) Deposit date: 2021-08-27 Release date: 2021-10-20 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (2.15 Å) Cite: Crystal Structure of dnaN DNA polymerase III beta subunit from Stenotrophomonas maltophilia K279a To Be Published
1U47	cytosine-8-Oxoguanine base pair at the polymerase active site Descriptor: DNA polymerase I, DNA primer strand, DNA template strand with 8-oxoguanine, ... Authors: Hsu, G.W, Ober, M, Carell, T, Beese, L.S. Deposit date: 2004-07-23 Release date: 2004-09-14 Last modified: 2023-08-23 Method: X-RAY DIFFRACTION (2 Å) Cite: Error-prone replication of oxidatively damaged DNA by a high-fidelity DNA polymerase. Nature, 431, 2004
6OOV	Crystal structure of HMCES SRAP domain in complex with palindromic 3' overhang DNA Descriptor: DNA (5'-D(*CP*AP*AP*CP*GP*TP*TP*GP*TP*TP*TP*TP*T)-3'), Embryonic stem cell-specific 5-hydroxymethylcytosine-binding protein, UNKNOWN ATOM OR ION Authors: Halabelian, L, Zeng, H, Li, Y, Bountra, C, Edwards, A.M, Arrowsmith, C.H, Structural Genomics Consortium (SGC) Deposit date: 2019-04-23 Release date: 2019-05-15 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (2.2 Å) Cite: Crystal structure of HMCES SRAP domain in complex with palindromic 3' overhang DNA To Be Published
7SCY	Nuc147 bound to single BRCT Descriptor: DNA (147-MER), Histone H2A, Histone H2B type 1-J, ... Authors: Muthurajan, U.M, Rudolph, J.R. Deposit date: 2021-09-29 Release date: 2022-01-12 Last modified: 2024-06-05 Method: ELECTRON MICROSCOPY (4.1 Å) Cite: The BRCT domain of PARP1 binds intact DNA and mediates intrastrand transfer. Mol.Cell, 81, 2021
7SCZ	Nuc147 bound to multiple BRCTs Descriptor: DNA (147-MER), Histone H2A, Histone H2B type 1-J, ... Authors: Muthurajan, U.M, Rudolph, J. Deposit date: 2021-09-29 Release date: 2022-01-19 Last modified: 2024-06-05 Method: ELECTRON MICROSCOPY (3.5 Å) Cite: The BRCT domain of PARP1 binds intact DNA and mediates intrastrand transfer. Mol.Cell, 81, 2021
5X3G	The WT UNG crystal structure from Nitratifractor salsuginis Descriptor: Uracil-DNA glycosylase Authors: Xie, W, Cao, W, Chen, R, Zhang, Z. Deposit date: 2017-02-06 Release date: 2017-10-18 Last modified: 2017-12-13 Method: X-RAY DIFFRACTION (2.021 Å) Cite: An unconventional family 1 uracil DNA glycosylase in Nitratifractor salsuginis. FEBS J., 284, 2017
5X3H	The Y81G mutant of the UNG crystal structure from Nitratifractor salsuginis Descriptor: Uracil-DNA glycosylase Authors: Xie, W, Chen, R, Cao, W, Zhang, Z. Deposit date: 2017-02-06 Release date: 2017-10-18 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (2.5 Å) Cite: An unconventional family 1 uracil DNA glycosylase in Nitratifractor salsuginis. FEBS J., 284, 2017
1KSB	Relationship of Solution and Protein-Bound Structures of DNA Duplexes with the Major Intrastrand Cross-Link Lesions Formed on Cisplatin Binding to DNA Descriptor: 5'-D(*AP*GP*GP*CP*CP*GP*GP*AP*G)-3', 5'-D(*CP*TP*CP*CP*GP*GP*CP*CP*T)-3', Cisplatin Authors: Marzilli, L.G, Saad, J.S, Kuklenyik, Z, Keating, K.A, Xu, Y. Deposit date: 2002-01-11 Release date: 2002-01-17 Last modified: 2024-05-01 Method: SOLUTION NMR Cite: Relationship of solution and protein-bound structures of DNA duplexes with the major intrastrand cross-link lesions formed on cisplatin binding to DNA. J.Am.Chem.Soc., 123, 2001
8PKI	Cryo-EM structure of NR5A2-nucleosome complex SHL+5.5 Descriptor: DNA, Histone H2A, Histone H2B type 1-C/E/G, ... Authors: Kobayashi, W, Sappler, A, Bollschweiler, D, Kummecke, M, Basquin, J, Arslantas, E, Ruangroengkulrith, S, Hornberger, R, Duderstadt, K, Tachibana, K. Deposit date: 2023-06-26 Release date: 2024-02-28 Last modified: 2024-05-29 Method: ELECTRON MICROSCOPY (2.58 Å) Cite: Nucleosome-bound NR5A2 structure reveals pioneer factor mechanism by DNA minor groove anchor competition. Nat.Struct.Mol.Biol., 31, 2024
8PW0	Manganese-dependent transcriptional repressor DR2539 complexed with manganese and bound to dr1709 promotor Descriptor: DNA (5'-D(*TP*AP*TP*TP*TP*TP*AP*GP*GP*CP*GP*CP*GP*AP*CP*TP*AP*AP*AP*AP*T)-3'), GLYCEROL, Iron dependent repressor, ... Authors: Mota, C, De Sanctis, D. Deposit date: 2023-07-18 Release date: 2024-05-08 Last modified: 2024-08-14 Method: X-RAY DIFFRACTION (2.2 Å) Cite: Metal ion activation and DNA recognition by the Deinococcus radiodurans manganese sensor DR2539. Febs J., 291, 2024
9BHA	Human DNA polymerase theta helicase domain dimer bound to DNA in the microhomology annealed conformation Descriptor: DNA polymerase theta, Stem-loop DNA with microhomology in the 3' overhang Authors: Zerio, C.J, Lander, G.C. Deposit date: 2024-04-19 Release date: 2024-05-01 Method: ELECTRON MICROSCOPY (3.5 Å) Cite: Human polymerase theta helicase positions DNA microhomologies for double-strand break repair To Be Published
9BH9	Human DNA polymerase theta helicase domain dimer bound to DNA in the microhomology aligning conformation Descriptor: DNA polymerase theta, Stem-loop DNA with microhomology in the 3' overhang Authors: Zerio, C.J, Lander, G.C. Deposit date: 2024-04-19 Release date: 2024-05-01 Method: ELECTRON MICROSCOPY (3.5 Å) Cite: Human polymerase theta helicase positions DNA microhomologies for double-strand break repair To Be Published
9GBV	E.coli gyrase holocomplex with chirally wrapped 217 bp DNA fragment Descriptor: DNA gyrase subunit A, DNA gyrase subunit B, MAGNESIUM ION, ... Authors: Michalczyk, E, Ghilarov, D. Deposit date: 2024-07-31 Release date: 2024-08-21 Method: ELECTRON MICROSCOPY (2.32 Å) Cite: Structure of Escherichia coli DNA gyrase with chirally wrapped DNA supports ratchet-and-pawl mechanism for an ATP-powered supercoiling motor Proceedings of the National Academy of Sciences USA, 2024
6LYJ	The crystal structure of SAUGI/EBVUDG complex Descriptor: SAUGI, Uracil-DNA glycosylase Authors: Liao, Y.T, Ko, T.P, Wang, H.C. Deposit date: 2020-02-14 Release date: 2020-06-24 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (2.1 Å) Cite: Structural insight into the differential interactions between the DNA mimic protein SAUGI and two gamma herpesvirus uracil-DNA glycosylases. Int.J.Biol.Macromol., 160, 2020
7YZA	Crystal structure of the zebrafish FoxH1 bound to the TGTGTATT site Descriptor: DNA (5'-D(*AP*GP*AP*TP*TP*GP*TP*GP*TP*AP*TP*TP*GP*AP*GP*A)-3'), DNA (5'-D(*TP*CP*TP*CP*AP*AP*TP*AP*CP*AP*CP*AP*AP*TP*CP*T)-3'), Forkhead box protein H1, ... Authors: Pluta, R, Macias, M.J. Deposit date: 2022-02-19 Release date: 2022-11-16 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (1.18 Å) Cite: Molecular basis for DNA recognition by the maternal pioneer transcription factor FoxH1. Nat Commun, 13, 2022
7YZ7	Crystal structure of the zebrafish FoxH1 bound to the TGTGGATT site Descriptor: DNA (5'-D(*AP*GP*AP*TP*TP*GP*TP*GP*GP*AP*TP*TP*GP*AP*GP*A)-3'), DNA (5'-D(*TP*CP*TP*CP*AP*AP*TP*CP*CP*AP*CP*AP*AP*TP*CP*T)-3'), Forkhead box protein H1, ... Authors: Pluta, R, Macias, M.J. Deposit date: 2022-02-18 Release date: 2022-11-16 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (0.98 Å) Cite: Molecular basis for DNA recognition by the maternal pioneer transcription factor FoxH1. Nat Commun, 13, 2022
7YZB	Crystal structure of the human FoxH1 bound to the TGTGGATT site Descriptor: DNA (5'-D(*AP*GP*AP*TP*TP*GP*TP*GP*GP*AP*TP*TP*GP*CP*GP*A)-3'), DNA (5'-D(*TP*CP*GP*CP*AP*AP*TP*CP*CP*AP*CP*AP*AP*TP*CP*T)-3'), Forkhead box protein H1, ... Authors: Pluta, R, Macias, M.J. Deposit date: 2022-02-19 Release date: 2022-11-16 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (1.47 Å) Cite: Molecular basis for DNA recognition by the maternal pioneer transcription factor FoxH1. Nat Commun, 13, 2022
7YZG	Crystal structure of the Xenopus FoxH1 bound to the TGTGGATT site Descriptor: DNA (5'-D(*CP*AP*GP*AP*TP*TP*GP*TP*GP*GP*AP*TP*TP*GP*AP*G)-3'), DNA (5'-D(*CP*TP*CP*AP*AP*TP*CP*CP*AP*CP*AP*AP*TP*CP*TP*G)-3'), Forkhead box protein H1 Authors: Pluta, R, Macias, M.J. Deposit date: 2022-02-19 Release date: 2022-11-16 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (2.82 Å) Cite: Molecular basis for DNA recognition by the maternal pioneer transcription factor FoxH1. Nat Commun, 13, 2022
7YZE	Crystal structure of the human FoxA2 bound to the TGTTTACT site (forkhead motif GTAAACA) Descriptor: DNA (5'-D(*AP*GP*AP*TP*TP*GP*TP*TP*TP*AP*CP*TP*GP*AP*GP*A)-3'), DNA (5'-D(*TP*CP*TP*CP*AP*GP*TP*AP*AP*AP*CP*AP*AP*TP*CP*T)-3'), Hepatocyte nuclear factor 3-beta, ... Authors: Pluta, R, Macias, M.J. Deposit date: 2022-02-19 Release date: 2022-11-16 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (1.99 Å) Cite: Molecular basis for DNA recognition by the maternal pioneer transcription factor FoxH1. Nat Commun, 13, 2022
7YZF	Crystal structure of the human FoxA2 bound to the TGTTTATT site (forkhead motif ATAAACA) Descriptor: DNA (5'-D(P*AP*GP*AP*TP*TP*GP*TP*TP*TP*AP*TP*TP*GP*AP*GP*A)-3'), DNA (5'-D(P*TP*CP*TP*CP*AP*AP*TP*AP*AP*AP*CP*AP*AP*TP*CP*T)-3'), Hepatocyte nuclear factor 3-beta, ... Authors: Pluta, R, Macias, M.J. Deposit date: 2022-02-19 Release date: 2022-11-16 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (2.18 Å) Cite: Molecular basis for DNA recognition by the maternal pioneer transcription factor FoxH1. Nat Commun, 13, 2022
9BAQ	CryoEM structure of DIM2-HP1-H3K9me3-DNA complex Descriptor: DNA (5'-D(*AP*CP*TP*AP*CP*T)-R(P*(PYO))-D(P*CP*TP*CP*CP*TP*CP*CP*TP*AP*CP*T)-3'), DNA (5'-D(*AP*GP*TP*AP*GP*GP*AP*GP*GP*AP*GP*GP*AP*GP*TP*AP*GP*T)-3'), DNA (cytosine-5-)-methyltransferase, ... Authors: Song, J, Shao, Z. Deposit date: 2024-04-04 Release date: 2024-07-24 Method: ELECTRON MICROSCOPY (2.79 Å) Cite: CryoEM structure of DIM2-HP1-H3K9me3-DNA complex To Be Published

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