6FQ2
 
 | | Structure of minimal sequence for left -handed G-quadruplex formation | | Descriptor: | DNA (5'-D(*GP*TP*GP*GP*TP*GP*GP*TP*GP*GP*TP*G)-3'), POTASSIUM ION | | Authors: | Schmitt, E, Mechulam, Y, Phan, A.T, Heddi, B, Bakalar, B. | | Deposit date: | 2018-02-13 | | Release date: | 2018-12-05 | | Last modified: | 2024-01-17 | | Method: | X-RAY DIFFRACTION (2.31 Å) | | Cite: | A Minimal Sequence for Left-Handed G-Quadruplex Formation.
Angew. Chem. Int. Ed. Engl., 58, 2019
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3THW
 | | Human MutSbeta complexed with an IDL of 4 bases (Loop4) and ADP | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, DNA Loop4 hairpin, DNA mismatch repair protein Msh2, ... | | Authors: | Yang, W. | | Deposit date: | 2011-08-19 | | Release date: | 2011-12-21 | | Last modified: | 2023-09-13 | | Method: | X-RAY DIFFRACTION (3.09 Å) | | Cite: | Mechanism of mismatch recognition revealed by human MutSbeta bound to unpaired DNA loops
Nat.Struct.Mol.Biol., 19, 2012
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6PNK
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2V4R
 | | Non-productive complex of the Y-family DNA polymerase Dpo4 with dGTP skipping the M1dG adduct to pair with the next template cytosine | | Descriptor: | 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*C)-3', 5'-D(*TP*CP*AP*CP*M1GP*GP*AP*AP*TP*CP*CP *TP*TP*CP*CP*CP*CP*C)-3', ... | | Authors: | Eoff, R.L, Stafford, J.B, Szekely, J, Rizzo, C.J, Egli, M, Guengerich, F.P, Marnett, L.J. | | Deposit date: | 2008-09-26 | | Release date: | 2009-06-16 | | Last modified: | 2023-12-13 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Structural and Functional Analysis of Sulfolobus Solfataricus Y-Family DNA Polymerase Dpo4-Catalyzed Bypass of the Malondialdehyde-Deoxyguanosine Adduct.
Biochemistry, 48, 2009
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2V4Q
 | | Post-insertion complex of the Y-family DNA polymerase Dpo4 with M1dG containing template DNA | | Descriptor: | 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*CP*C)-3', 5'-D(*TP*CP*AP*C M1GP*GP*AP*AP*TP*CP*CP *TP*TP*CP*CP*CP*CP*C)-3', ... | | Authors: | Eoff, R.L, Stafford, J.B, Szekely, J, Rizzo, C.J, Egli, M, Guengerich, F.P, Marnett, L.J. | | Deposit date: | 2008-09-26 | | Release date: | 2009-06-16 | | Last modified: | 2023-12-13 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Structural and Functional Analysis of Sulfolobus Solfataricus Y-Family DNA Polymerase Dpo4-Catalyzed Bypass of the Malondialdehyde-Deoxyguanosine Adduct.
Biochemistry, 48, 2009
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1H7W
 | | Dihydropyrimidine dehydrogenase (DPD) from pig | | Descriptor: | DIHYDROPYRIMIDINE DEHYDROGENASE, FLAVIN MONONUCLEOTIDE, FLAVIN-ADENINE DINUCLEOTIDE, ... | | Authors: | Dobritzsch, D, Schneider, G, Schnackerz, K.D, Lindqvist, Y. | | Deposit date: | 2001-01-19 | | Release date: | 2001-02-23 | | Last modified: | 2024-05-08 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Crystal structure of dihydropyrimidine dehydrogenase, a major determinant of the pharmacokinetics of the anti-cancer drug 5-fluorouracil.
EMBO J., 20, 2001
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1H7X
 | | Dihydropyrimidine dehydrogenase (DPD) from pig, ternary complex of a mutant enzyme (C671A), NADPH and 5-fluorouracil | | Descriptor: | 5-FLUOROURACIL, DIHYDROPYRIMIDINE DEHYDROGENASE, FLAVIN MONONUCLEOTIDE, ... | | Authors: | Dobritzsch, D, Schneider, G, Schnackerz, K.D, Lindqvist, Y. | | Deposit date: | 2001-01-19 | | Release date: | 2001-02-23 | | Last modified: | 2024-05-01 | | Method: | X-RAY DIFFRACTION (2.01 Å) | | Cite: | Crystal Structure of Dihydropyrimidine Dehydrogenase, a Major Determinant of the Pharmacokinetics of the Anti-Cancer Drug 5-Fluorouracil
Embo J., 20, 2001
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1L1H
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457D
 | | MOLECULAR AND CRYSTAL STRUCTURE OF D(CGCGMO6AATTCGCG): N6-METHOXYADENOSINE/ THYMIDINE BASE-PAIRS IN B-DNA | | Descriptor: | DNA (5'-D(*CP*GP*CP*GP*(A47)P*AP*TP*TP*CP*GP*CP*G)-3'), MAGNESIUM ION | | Authors: | Chatake, T, Ono, A, Ueno, Y, Matsuda, A, Takenaka, A. | | Deposit date: | 1999-03-06 | | Release date: | 2000-01-01 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Crystallographic studies on damaged DNAs. II. N(6)-methoxyadenine can present two alternate faces for Watson-Crick base-pairing, leading to pyrimidine transition mutagenesis.
J.Mol.Biol., 294, 1999
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1N1O
 | | Crystal Structure of a B-form DNA Duplex Containing (L)-alpha-threofuranosyl (3'-2') Nucleosides: A Four-Carbon Sugar is Easily Accommodated into the Backbone of DNA | | Descriptor: | 5'-D(*CP*GP*CP*GP*AP*AP*(TFT)P*TP*CP*GP*CP*G)-3', MAGNESIUM ION | | Authors: | Wilds, C.J, Wawrzak, Z, Krishnamurthy, R, Eschenmoser, A, Egli, M. | | Deposit date: | 2002-10-18 | | Release date: | 2002-11-15 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (1.2 Å) | | Cite: | Crystal Structure of a B-Form DNA Duplex Containing (L)-alpha-Threofuranosyl (3'-->2') Nucleosides: A
Four-Carbon Sugar Is Easily Accommodated into the Backbone of DNA
J.Am.Chem.Soc., 124, 2002
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6B6H
 | | The cryo-EM structure of a bacterial class I transcription activation complex | | Descriptor: | ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE, DNA-directed RNA polymerase subunit alpha, DNA-directed RNA polymerase subunit beta, ... | | Authors: | Liu, B, Hong, C, Huang, R, Yu, Z, Steitz, T.A. | | Deposit date: | 2017-10-02 | | Release date: | 2017-11-15 | | Last modified: | 2024-03-13 | | Method: | ELECTRON MICROSCOPY (3.9 Å) | | Cite: | Structural basis of bacterial transcription activation.
Science, 358, 2017
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1DPL
 | | A-DNA DECAMER GCGTA(T23)TACGC WITH INCORPORATED 2'-METHOXY-3'-METHYLENEPHOSPHATE-THYMIDINE | | Descriptor: | 5'-D(*GP*CP*GP*TP*AP*(T23)P*AP*CP*GP*C)-3', MAGNESIUM ION, SPERMINE | | Authors: | Egli, M, Tereshko, V, Teplova, M, Minasov, G, Joachimiak, A, Sanishvili, R, Weeks, C.M, Miller, R, Maier, M.A, An, H, Dan Cook, P, Manoharan, M. | | Deposit date: | 1999-12-27 | | Release date: | 2000-04-04 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (0.83 Å) | | Cite: | X-ray crystallographic analysis of the hydration of A- and B-form DNA at atomic resolution.
Biopolymers, 48, 1998
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1E2P
 | | Thymidine kinase, DHBT | | Descriptor: | 6-[3-HYDROXY-2-(HYDROXYMETHYL)PROPYL]-5-METHYL-2,4(1H,3H)-PYRIMIDINEDIONE, SULFATE ION, THYMIDINE KINASE | | Authors: | Schulz, G.E, Kessler, U. | | Deposit date: | 2000-05-23 | | Release date: | 2001-04-26 | | Last modified: | 2023-12-06 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | The Effect of Substrate Binding on the Conformation and Structural Stability of Herpes Simplex Virus Type 1 Thymidine Kinase
Protein Sci., 10, 2001
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101D
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113D
 | | THE STRUCTURE OF GUANOSINE-THYMIDINE MISMATCHES IN B-DNA AT 2.5 ANGSTROMS RESOLUTION | | Descriptor: | DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*TP*GP*CP*G)-3') | | Authors: | Hunter, W.N, Brown, T, Kneale, G, Anand, N.N, Rabinovich, D, Kennard, O. | | Deposit date: | 1993-01-04 | | Release date: | 1993-07-15 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | The structure of guanosine-thymidine mismatches in B-DNA at 2.5-A resolution.
J.Biol.Chem., 262, 1987
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1Z5T
 | | Crystal Structure of [d(CGCGAA(Z3dU)(Z3dU)CGCG)]2, Z3dU:5-(3-aminopropyl)-2'-deoxyuridine, in presence of thallium I. | | Descriptor: | 5'-D(*CP*GP*CP*GP*AP*AP*(ZDU)P*(ZDU)P*CP*GP*CP*G)-3', SPERMINE, THALLIUM (I) ION | | Authors: | Moulaei, T, Maehigashi, T, Lountos, G.T, Komeda, S, Watkins, D, Stone, M.P, Marky, L.A, Li, J.S, Gold, B, Williams, L.D. | | Deposit date: | 2005-03-19 | | Release date: | 2005-07-26 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | Structure of B-DNA with cations tethered in the major groove.
Biochemistry, 44, 2005
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7DO1
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4I9V
 | | The atomic structure of 5-Hydroxymethyl 2'-deoxycitidine base paired with 2'-deoxyguanosine in Dickerson Drew Dodecamer | | Descriptor: | DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(5HC)P*GP*CP*G)-3'), MAGNESIUM ION, SPERMINE (FULLY PROTONATED FORM) | | Authors: | Nocek, B, Szulik, M.W, Joachimiak, A, Stone, M.P. | | Deposit date: | 2012-12-05 | | Release date: | 2013-11-20 | | Last modified: | 2023-09-20 | | Method: | X-RAY DIFFRACTION (1.02 Å) | | Cite: | Differential stabilities and sequence-dependent base pair opening dynamics of watson-crick base pairs with 5-hydroxymethylcytosine, 5-formylcytosine, or 5-carboxylcytosine.
Biochemistry, 54, 2015
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7OMY
 | | Thermus sp. 2.9 DarT in complex with carba-NAD+ and ssDNA | | Descriptor: | CARBA-NICOTINAMIDE-ADENINE-DINUCLEOTIDE, DNA (5'-D(*AP*TP*GP*TP*C)-3'), DarT domain-containing protein, ... | | Authors: | Schuller, M, Ariza, A. | | Deposit date: | 2021-05-24 | | Release date: | 2021-06-23 | | Last modified: | 2024-05-01 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | Molecular basis for DarT ADP-ribosylation of a DNA base.
Nature, 596, 2021
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7ON0
 | | Thermus sp. 2.9 DarT in complex with ADP-ribosylated ssDNA | | Descriptor: | DNA (5'-D(*AP*TP*GP*TP*C)-3'), DarT domain-containing protein, [(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE | | Authors: | Schuller, M, Ariza, A. | | Deposit date: | 2021-05-24 | | Release date: | 2021-06-23 | | Last modified: | 2024-05-01 | | Method: | X-RAY DIFFRACTION (1.46 Å) | | Cite: | Molecular basis for DarT ADP-ribosylation of a DNA base.
Nature, 596, 2021
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7OMZ
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8BNA
 | | BINDING OF HOECHST 33258 TO THE MINOR GROOVE OF B-DNA | | Descriptor: | 2'-(4-HYDROXYPHENYL)-5-(4-METHYL-1-PIPERAZINYL)-2,5'-BI-BENZIMIDAZOLE, DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3'), MAGNESIUM ION | | Authors: | Pjura, P.E, Grzeskowiak, K, Dickerson, R.E. | | Deposit date: | 1986-08-29 | | Release date: | 1987-01-15 | | Last modified: | 2024-02-14 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Binding of Hoechst 33258 to the minor groove of B-DNA.
J.Mol.Biol., 197, 1987
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1MWI
 | | Crystal structure of a MUG-DNA product complex | | Descriptor: | 5'-D(*CP*GP*CP*GP*AP*GP*(AAB)P*TP*CP*GP*CP*G)-3', G/U mismatch-specific DNA glycosylase | | Authors: | Barrett, T.E, Savva, R, Panayotou, G, Brown, T, Barlow, T, Jiricny, J, Pearl, L.H. | | Deposit date: | 2002-09-30 | | Release date: | 2002-10-04 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (2.35 Å) | | Cite: | Crystal structure of a G:T/U mismatch-specific DNA glycosylase: mismatch recognition by complementary-strand interactions.
Cell(Cambridge,Mass.), 92, 1998
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2K4G
 | | Solution Structure of a Peptide Nucleic Acid Duplex, 10 structures | | Descriptor: | METHYLAMINE, PNA (N'-(*(GPN)*(GPN)*(CPN)*(APN)*(TPN)*(GPN)*(CPN)*(CPN))-C') | | Authors: | He, W, Hatcher, E, Balaeff, A, Beratan, D, Gil, R, Madrid, M, Achim, C. | | Deposit date: | 2008-06-07 | | Release date: | 2008-09-23 | | Last modified: | 2023-11-15 | | Method: | SOLUTION NMR | | Cite: | Solution structure of a peptide nucleic acid duplex from NMR data: features and limitations.
J.Am.Chem.Soc., 130, 2008
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1D85
 | | STRUCTURAL CONSEQUENCES OF A CARCINOGENIC ALKYLATION LESION ON DNA: EFFECT OF O6-ETHYL-GUANINE ON THE MOLECULAR STRUCTURE OF D(CGC[E6G]AATTCGCG)-NETROPSIN COMPLEX | | Descriptor: | DNA (5'-D(*CP*GP*CP*(G36)P*AP*AP*TP*TP*CP*GP*CP*G)-3'), NETROPSIN | | Authors: | Sriram, M, Van Der Marel, G.A, Roelen, H.L.P.F, Van Boom, J.H, Wang, A.H.-J. | | Deposit date: | 1992-08-24 | | Release date: | 1993-07-15 | | Last modified: | 2024-02-07 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Structural consequences of a carcinogenic alkylation lesion on DNA: effect of O6-ethylguanine on the molecular structure of the d(CGC[e6G]AATTCGCG)-netropsin complex.
Biochemistry, 31, 1992
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