389D
| CRYSTAL STRUCTURE OF B-DNA WITH INCORPORATED 2'-DEOXY-2'-FLUORO-ARABINO-FURANOSYL THYMINES: IMPLICATIONS OF CONFORMATIONAL PREORGANIZATION FOR DUPLEX STABILITY | Descriptor: | DNA (5'-D(*CP*GP*CP*GP*AP*AP*(TAF)P*TP*CP*GP*CP*G)-3'), MAGNESIUM ION | Authors: | Berger, I, Tereshko, V, Ikeda, H, Marquez, V.E, Egli, M. | Deposit date: | 1998-04-20 | Release date: | 1998-05-05 | Last modified: | 2024-02-21 | Method: | X-RAY DIFFRACTION (1.55 Å) | Cite: | Crystal structures of B-DNA with incorporated 2'-deoxy-2'-fluoro-arabino-furanosyl thymines: implications of conformational preorganization for duplex stability. Nucleic Acids Res., 26, 1998
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4RBY
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4RC0
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4RBZ
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2GBL
| Crystal Structure of Full Length Circadian Clock Protein KaiC with Phosphorylation Sites | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, Circadian clock protein kinase kaiC, MAGNESIUM ION | Authors: | Pattanayek, R, Williams, D.R, Pattanayek, S, Xu, Y, Mori, T, Johnson, C.H, Stewart, P.L, Egli, M. | Deposit date: | 2006-03-10 | Release date: | 2007-01-23 | Last modified: | 2021-07-28 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Analysis of KaiA-KaiC protein interactions in the cyano-bacterial circadian clock using hybrid structural methods. Embo J., 25, 2006
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2IDK
| Crystal Structure of Rat Glycine N-Methyltransferase Complexed With Folate | Descriptor: | 5-METHYL-5,6,7,8-TETRAHYDROFOLIC ACID, Glycine N-methyltransferase | Authors: | Luka, Z, Pakhomova, S, Loukachevitch, L.V, Egli, M, Newcomer, M.E, Wagner, C. | Deposit date: | 2006-09-15 | Release date: | 2006-12-19 | Last modified: | 2023-08-30 | Method: | X-RAY DIFFRACTION (2.55 Å) | Cite: | 5-methyltetrahydrofolate is bound in intersubunit areas of rat liver folate-binding protein glycine N-methyltransferase. J.Biol.Chem., 282, 2007
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2IDJ
| Crystal Structure of Rat Glycine N-Methyltransferase Apoprotein, Monoclinic Form | Descriptor: | CALCIUM ION, Glycine N-methyltransferase | Authors: | Luka, Z, Pakhomova, S, Loukachevitch, L.V, Egli, M, Newcomer, M.E, Wagner, C. | Deposit date: | 2006-09-15 | Release date: | 2006-12-19 | Last modified: | 2023-08-30 | Method: | X-RAY DIFFRACTION (2.35 Å) | Cite: | 5-methyltetrahydrofolate is bound in intersubunit areas of rat liver folate-binding protein glycine N-methyltransferase. J.Biol.Chem., 282, 2007
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2J6S
| Ternary complex of Sulfolobus solfataricus Dpo4 DNA polymerase, O6- methylguanine modified DNA, and dATP. | Descriptor: | 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*CP*C)-3', 5'-D(*TP*CP*AP*TP*XP*GP*AP*AP*TP*CP *CP*TP*TP*CP*CP*CP*CP*C)-3', ... | Authors: | Irimia, A, Eoff, R.L, Guengerich, F.P, Egli, M. | Deposit date: | 2006-10-04 | Release date: | 2006-11-22 | Last modified: | 2023-12-13 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Sulfolobus Solfataricus DNA Polymerase Dpo4 is Partially Inhibited by "Wobble" Pairing between O6- Methylguanine and Cytosine, But Accurate Bypass is Preferred. J.Biol.Chem., 282, 2007
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2J6T
| Ternary complex of Sulfolobus solfataricus Dpo4 DNA polymerase, O6- methylguanine modified DNA, and dATP. | Descriptor: | 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*C)-3', 5'-D(*TP*CP*AP*TP*XP*GP*AP*AP*TP*CP *CP*TP*TP*CP*CP*CP*CP*C)-3', ... | Authors: | Irimia, A, Eoff, R.L, Guengerich, F.P, Egli, M. | Deposit date: | 2006-10-04 | Release date: | 2006-11-22 | Last modified: | 2023-12-13 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Sulfolobus Solfataricus DNA Polymerase Dpo4 is Partially Inhibited by "Wobble" Pairing between O6- Methylguanine and Cytosine, But Accurate Bypass is Preferred. J.Biol.Chem., 282, 2007
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2J6U
| Ternary complex of Sulfolobus solfataricus Dpo4 DNA polymerase, O6- methylguanine modified DNA, and dGTP. | Descriptor: | 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP *TP*TP*CP*T)-3', 5'-D(*TP*CP*AP*C G32P*GP*AP*AP*TP*CP*CP *TP*TP*CP*CP*CP*CP*C)-3', ... | Authors: | Eoff, R.L, Irimia, A, Guengerich, F.P, Egli, M. | Deposit date: | 2006-10-04 | Release date: | 2006-11-22 | Last modified: | 2023-12-13 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Sulfolobus Solfataricus DNA Polymerase Dpo4 is Partially Inhibited by "Wobble" Pairing between O6- Methylguanine and Cytosine, But Accurate Bypass is Preferred. J.Biol.Chem., 282, 2007
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2M11
| Structure of perimidinone-derived synthetic nucleoside paired with guanine in DNA duplex | Descriptor: | DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(D3N)P*GP*CP*G)-3') | Authors: | Kowal, E.A, Lad, R, Pallan, P.S, Muffly, E, Wawrzak, Z, Egli, M, Sturla, S.J, Stone, M.P. | Deposit date: | 2012-11-09 | Release date: | 2013-06-12 | Last modified: | 2024-05-01 | Method: | SOLUTION NMR | Cite: | Recognition of O6-benzyl-2'-deoxyguanosine by a perimidinone-derived synthetic nucleoside: a DNA interstrand stacking interaction. Nucleic Acids Res., 41, 2013
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7U38
| Pixantrone tethered DNA duplex | Descriptor: | 1,2-ETHANEDIOL, Pixantrone AP conjugate-modified DNA | Authors: | Pallan, P.S, Egli, M. | Deposit date: | 2022-02-26 | Release date: | 2023-03-15 | Last modified: | 2024-05-22 | Method: | X-RAY DIFFRACTION (2.49 Å) | Cite: | Structural Characterization of a Covalent Conjugate between Pixantrone and an Abasic Site in DNA To Be Published
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1XUX
| Structural rationalization of a large difference in RNA affinity despite a small difference in chemistry between two 2'-O-modified nucleic acid analogs | Descriptor: | DNA (5'-D(*GP*CP*GP*TP*AP*(NMS)P*AP*CP*GP*C)-3') | Authors: | Pattanayek, R, Sethaphong, L, Pan, C, Prhavc, M, Prakash, T.P, Manoharan, M, Egli, M. | Deposit date: | 2004-10-26 | Release date: | 2004-12-14 | Last modified: | 2023-08-23 | Method: | X-RAY DIFFRACTION (1.3 Å) | Cite: | Structural rationalization of a large difference in RNA affinity despite a small difference in chemistry between two 2'-O-modified nucleic acid analogues. J.Am.Chem.Soc., 126, 2004
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1XUW
| Structural rationalization of a large difference in RNA affinity despite a small difference in chemistry between two 2'-O-modified nucleic acid analogs | Descriptor: | DNA (5'-D(*GP*CP*GP*TP*AP*(NMT)P*AP*CP*GP*C)-3') | Authors: | Pattanayek, R, Sethaphong, L, Pan, C, Prhavc, M, Prakash, T.P, Manoharan, M, Egli, M. | Deposit date: | 2004-10-26 | Release date: | 2004-12-14 | Last modified: | 2023-08-23 | Method: | X-RAY DIFFRACTION (1.25 Å) | Cite: | Structural rationalization of a large difference in RNA affinity despite a small difference in chemistry between two 2'-O-modified nucleic acid analogues. J.Am.Chem.Soc., 126, 2004
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4PWM
| Crystal structure of Dickerson Drew Dodecamer with 5-carboxycytosine | Descriptor: | 5'-[CGCGAATT(5CC)GCG]-3' | Authors: | Szulik, M.W, Pallan, P, Banerjee, S, Voehler, M, Egli, M, Stone, M.P. | Deposit date: | 2014-03-20 | Release date: | 2015-02-11 | Last modified: | 2023-09-20 | Method: | X-RAY DIFFRACTION (1.95 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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5VR4
| RNA octamer containing 2'-F-4'-OMe U. | Descriptor: | COBALT TETRAAMMINE ION, RNA (5'-R(*CP*GP*AP*AP*(UMO)P*UP*CP*G)-3') | Authors: | Harp, J.M, Egli, M. | Deposit date: | 2017-05-10 | Release date: | 2017-10-04 | Last modified: | 2023-10-04 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | 4'-C-Methoxy-2'-deoxy-2'-fluoro Modified Ribonucleotides Improve Metabolic Stability and Elicit Efficient RNAi-Mediated Gene Silencing. J. Am. Chem. Soc., 139, 2017
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5W20
| Crystal Structure of inosine-substituted duplex DNA | Descriptor: | DNA (5'-D(*CP*CP*AP*IP*IP*CP*CP*TP*GP*G)-3'), MAGNESIUM ION | Authors: | Pallan, P.S, Egli, M. | Deposit date: | 2017-06-05 | Release date: | 2017-08-23 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.36 Å) | Cite: | Comparative analysis of inosine-substituted duplex DNA by circular dichroism and X-ray crystallography. J. Biomol. Struct. Dyn., 36, 2018
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5W1Z
| Crystal Structure of inosine-substituted decamer duplex DNA (I4) | Descriptor: | DNA (5'-D(*CP*CP*AP*IP*IP*CP*CP*(BRU)P*IP*I)-3'), MAGNESIUM ION, SODIUM ION | Authors: | Pallan, P.S, Egli, M. | Deposit date: | 2017-06-05 | Release date: | 2017-08-30 | Last modified: | 2024-03-13 | Method: | X-RAY DIFFRACTION (1.55 Å) | Cite: | Comparative analysis of inosine-substituted duplex DNA by circular dichroism and X-ray crystallography. J. Biomol. Struct. Dyn., 36, 2018
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4HTU
| Structure of 5-chlorouracil modified A:U base pair | Descriptor: | 1,2-ETHANEDIOL, DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*(UCL)P*CP*GP*CP*G)-3'), GLYCEROL, ... | Authors: | Patra, A, Egli, M. | Deposit date: | 2012-11-01 | Release date: | 2012-12-19 | Last modified: | 2023-09-20 | Method: | X-RAY DIFFRACTION (1.489 Å) | Cite: | Structure, stability and function of 5-chlorouracil modified A:U and G:U base pairs. Nucleic Acids Res., 41, 2013
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4HUG
| Structure of 5-chlorouracil modified A:U base pairs | Descriptor: | 1,2-ETHANEDIOL, DNA (5'-D(*CP*GP*CP*GP*AP*AP*(UCL)P*(UCL)P*CP*GP*CP*G)-3'), GLYCEROL, ... | Authors: | Patra, A, Egli, M. | Deposit date: | 2012-11-02 | Release date: | 2012-12-19 | Last modified: | 2023-09-20 | Method: | X-RAY DIFFRACTION (1.64 Å) | Cite: | Structure, stability and function of 5-chlorouracil modified A:U and G:U base pairs. Nucleic Acids Res., 41, 2013
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4HUF
| Structure of 5-chlorouracil modified A:U base pair | Descriptor: | 1,2-ETHANEDIOL, DNA (5'-D(*CP*GP*CP*GP*AP*AP*(UCL)P*TP*CP*GP*CP*G)-3'), GLYCEROL, ... | Authors: | Patra, A, Egli, M. | Deposit date: | 2012-11-02 | Release date: | 2012-12-19 | Last modified: | 2023-09-20 | Method: | X-RAY DIFFRACTION (1.69 Å) | Cite: | Structure, stability and function of 5-chlorouracil modified A:U and G:U base pairs. Nucleic Acids Res., 41, 2013
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4HUE
| Structure of 5-chlorouracil modified G:U base pair | Descriptor: | DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(UCL)P*GP*CP*G)-3'), GLYCEROL, MAGNESIUM ION, ... | Authors: | Patra, A, Egli, M. | Deposit date: | 2012-11-02 | Release date: | 2012-12-19 | Last modified: | 2023-09-20 | Method: | X-RAY DIFFRACTION (1.561 Å) | Cite: | Structure, stability and function of 5-chlorouracil modified A:U and G:U base pairs. Nucleic Acids Res., 41, 2013
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4QC7
| Dodecamer structure of 5-formylcytosine containing DNA | Descriptor: | short DNA strands | Authors: | Szulik, M.W, Pallan, P, Egli, M, Stone, M.P. | Deposit date: | 2014-05-09 | Release date: | 2015-02-11 | Last modified: | 2023-09-20 | Method: | X-RAY DIFFRACTION (1.9 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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3JZM
| Crystal structure of the phosphorylation-site mutant T432A of the KaiC circadian clock protein | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, Circadian clock protein kinase kaiC, MAGNESIUM ION | Authors: | Pattanayek, R, Egli, M, Pattanayek, S. | Deposit date: | 2009-09-23 | Release date: | 2010-03-31 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (2.9 Å) | Cite: | Structures of KaiC Circadian Clock Mutant Proteins: A New Phosphorylation Site at T426 and Mechanisms of Kinase, ATPase and Phosphatase. Plos One, 4, 2009
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3K0F
| Crystal structure of the phosphorylation-site double mutant T426A/T432A of the KaiC circadian clock protein | Descriptor: | ADENOSINE-5'-TRIPHOSPHATE, Circadian clock protein kinase KaiC, MAGNESIUM ION | Authors: | Pattanayek, R, Egli, M, Pattanayek, S. | Deposit date: | 2009-09-24 | Release date: | 2010-03-31 | Last modified: | 2023-09-06 | Method: | X-RAY DIFFRACTION (3 Å) | Cite: | Structures of KaiC Circadian Clock Mutant Proteins: A New Phosphorylation Site at T426 and Mechanisms of Kinase, ATPase and Phosphatase. Plos One, 4, 2009
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