PDB: 13252 resultsInfo pagesStatus searchChemie searchBIRD

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5J2H	Ternary complex crystal structure of DNA polymerase Beta with G:T mismatch at the primer terminus Descriptor: 2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE, CHLORIDE ION, DNA polymerase beta, ... Authors: Batra, V.K, Wilson, S.H. Deposit date: 2016-03-29 Release date: 2016-10-26 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Structures of DNA Polymerase Mispaired DNA Termini Transitioning to Pre-catalytic Complexes Support an Induced-Fit Fidelity Mechanism. Structure, 24, 2016
1EUY	GLUTAMINYL-TRNA SYNTHETASE COMPLEXED WITH A TRNA MUTANT AND AN ACTIVE SITE INHIBITOR Descriptor: 5'-O-[N-(L-GLUTAMINYL)-SULFAMOYL]ADENOSINE, GLUTAMINYL TRNA, GLUTAMINYL-TRNA SYNTHETASE Authors: Sherlin, L.D, Bullock, T.L, Newberry, K.J, Lipman, R.S.A, Hou, Y.-M, Beijer, B, Sproat, B.S, Perona, J.J. Deposit date: 2000-04-19 Release date: 2000-06-04 Last modified: 2024-02-07 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Influence of transfer RNA tertiary structure on aminoacylation efficiency by glutaminyl and cysteinyl-tRNA synthetases. J.Mol.Biol., 299, 2000
4X0Q	Ternary complex of human DNA polymerase theta C-terminal domain binding ddGTP opposite dCMP Descriptor: 2'-3'-DIDEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*GP*TP*CP*CP*AP*AP*TP*GP*AP*CP*AP*G)-3'), DNA (5'-D(P*CP*TP*GP*TP*CP*AP*TP*TP*G)-3'), ... Authors: Zahn, K.E, Doublie, S. Deposit date: 2014-11-22 Release date: 2015-03-18 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (3.9 Å) Cite: Human DNA polymerase theta grasps the primer terminus to mediate DNA repair. Nat.Struct.Mol.Biol., 22, 2015
1QU3	INSIGHTS INTO EDITING FROM AN ILE-TRNA SYNTHETASE STRUCTURE WITH TRNA(ILE) AND MUPIROCIN Descriptor: ISOLEUCYL-TRNA, ISOLEUCYL-TRNA SYNTHETASE, MUPIROCIN, ... Authors: Silvian, L.F, Wang, J, Steitz, T.A. Deposit date: 1999-07-06 Release date: 1999-08-31 Last modified: 2023-08-23 Method: X-RAY DIFFRACTION (2.9 Å) Cite: Insights into editing from an ile-tRNA synthetase structure with tRNAile and mupirocin. Science, 285, 1999
2XCP	TERNARY COMPLEX OF SULFOLOBUS SOLFATARICUS DPO4 DNA POLYMERASE, 7,8- DIHYDRO-8-OXODEOXYGUANINE MODIFIED DNA AND dCTP - MAGNESIUM FORM Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP *TP*DOC)-3', 5'-D(*TP*CP*AP*CP*8OGP*GP*AP*AP*TP*CP*CP *TP*TP*CP*CP*CP*CP*C)-3', ... Authors: Irimia, A, Egli, M. Deposit date: 2010-04-24 Release date: 2010-09-08 Last modified: 2023-12-20 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Metal Ion Dependence of the Active Site Conformation of the Trans-Lesion DNA Polymerase Dpo4 from Sulfolobus Solfataricus Acta Crystallogr.,Sect.F, 66, 2010
2XCA	TERNARY COMPLEX OF SULFOLOBUS SOLFATARICUS DPO4 DNA POLYMERASE, 7,8- DIHYDRO-8-OXODEOXYGUANINE MODIFIED DNA AND dGTP - MAGNESIUM FORM Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*DOC)-3', 5'-D(*TP*CP*AP*CP*8OGP*GP*AP*AP*TP*CP*CP*TP*TP*CP* CP*CP*CP*C)-3', ... Authors: Irimia, A, Egli, M. Deposit date: 2010-04-20 Release date: 2010-09-08 Last modified: 2023-12-20 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Metal Ion Dependence of the Active Site Conformation of the Trans-Lesion DNA Polymerase Dpo4 from Sulfolobus Solfataricus Acta Crystallogr.,Sect.F, 66, 2010
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
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
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
2ISP	Ternary complex of DNA Polymerase beta with a dideoxy terminated primer and 2'-deoxyguanosine 5'-beta, gamma-methylene triphosphate Descriptor: 2'-DEOXY-5'-O-(HYDROXY{[HYDROXY(PHOSPHONOMETHYL)PHOSPHORYL]OXY}PHOSPHORYL)GUANOSINE, 5'-D(*CP*CP*GP*AP*CP*CP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3', 5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*(DOC))-3', ... Authors: Sucato, C.A, Upton, T.G, Kashemirov, B.A, Martinek, V, Xiang, Y, Beard, W.A. Deposit date: 2006-10-18 Release date: 2007-01-30 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (2.2 Å) Cite: Modifying the beta,gamma Leaving-Group Bridging Oxygen Alters Nucleotide Incorporation Efficiency, Fidelity, and the Catalytic Mechanism of DNA Polymerase beta. Biochemistry, 46, 2007
3KS4	Crystal structure of Reston ebolavirus VP35 RNA binding domain Descriptor: Polymerase cofactor VP35 Authors: Kimberlin, C.R, Bornholdt, Z.A, Li, S, Woods, V.L, Macrae, I.J, Saphire, E.O. Deposit date: 2009-11-20 Release date: 2010-01-12 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Ebolavirus VP35 uses a bimodal strategy to bind dsRNA for innate immune suppression. Proc.Natl.Acad.Sci.USA, 107, 2009
4K4H	Ternary crystal structures of a human DNA POLYMERASE LAMBDA IN COMPLEX WITH DNA AND (-)3TC-TP. Descriptor: ACETATE ION, CALCIUM ION, DNA (5'-D(*CP*AP*GP*TP*AP*C)-3'), ... Authors: Vyas, R, Suo, Z. Deposit date: 2013-04-12 Release date: 2014-07-16 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (2.1 Å) Cite: Structural basis for the binding and incorporation of nucleotide analogs with L-stereochemistry by human DNA polymerase lambda. Proc.Natl.Acad.Sci.USA, 111, 2014
4K4G	Ternary crystal structures of human DNA POLYMERASE LAMBDA IN COMPLEX WITH DNA AND L-DCTP. Descriptor: 4-amino-1-{2-deoxy-5-O-[(R)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]-beta-L-erythro-pentofuranosyl}pyrimidin-2(1H)-one, ACETATE ION, CACODYLATE ION, ... Authors: Vyas, R, Suo, Z. Deposit date: 2013-04-12 Release date: 2014-07-16 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (2.15 Å) Cite: Structural basis for the binding and incorporation of nucleotide analogs with L-stereochemistry by human DNA polymerase lambda. Proc.Natl.Acad.Sci.USA, 111, 2014
6PH6	Ternary complex crystal structure of DNA polymerase Beta with 2nt-gap with dCTP bound downstream Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*CP*GP*AP*CP*GP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*G)-3'), ... Authors: Batra, V.K, Wilson, S.H. Deposit date: 2019-06-25 Release date: 2019-12-11 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (2.6 Å) Cite: DNA polymerase beta nucleotide-stabilized template misalignment fidelity depends on local sequence context. J.Biol.Chem., 295, 2020
4K4I	Ternary crystal structures of a human DNA POLYMERASE LAMBDA IN COMPLEX WITH DNA AND (-)FTC-TP. Descriptor: ACETATE ION, CACODYLATE ION, CALCIUM ION, ... Authors: Vyas, R, Suo, Z. Deposit date: 2013-04-12 Release date: 2014-07-16 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.25 Å) Cite: Structural basis for the binding and incorporation of nucleotide analogs with L-stereochemistry by human DNA polymerase lambda. Proc.Natl.Acad.Sci.USA, 111, 2014
6UEJ	Crystal structure of human zinc finger antiviral protein bound to RNA Descriptor: RNA (5'-R(P*UP*CP*G)-3'), SPERMINE, ZINC ION, ... Authors: Meagher, J.L, Smith, J.L. Deposit date: 2019-09-21 Release date: 2019-11-13 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (2.21 Å) Cite: Structure of the zinc-finger antiviral protein in complex with RNA reveals a mechanism for selective targeting of CG-rich viral sequences. Proc.Natl.Acad.Sci.USA, 116, 2019
2GM0	Linear dimer of stemloop SL1 from HIV-1 Descriptor: RNA (35-MER) Authors: Ulyanov, N.B, Mujeeb, A, Du, Z, Tonelli, M, Parslow, T.G, James, T.L. Deposit date: 2006-04-05 Release date: 2006-04-25 Last modified: 2024-05-29 Method: SOLUTION NMR Cite: NMR Structure of the Full-length Linear Dimer of Stem-Loop-1 RNA in the HIV-1 Dimer Initiation Site. J.Biol.Chem., 281, 2006
4J2B	RB69 DNA Polymerase L415G Ternary Complex Descriptor: ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*GP*CP*GP*GP*AP*CP*TP*GP*CP*TP*TP*AP*T)-3'), ... Authors: Xia, S, Wang, J, Konigsberg, W.H. Deposit date: 2013-02-04 Release date: 2014-02-19 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.04 Å) Cite: Alteration in the cavity size adjacent to the active site of RB69 DNA polymerase changes its conformational dynamics. Nucleic Acids Res., 41, 2013
4J2E	RB69 DNA Polymerase L415M Ternary Complex Descriptor: ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA (5'-D(*GP*CP*GP*GP*AP*CP*TP*GP*CP*TP*TP*AP*G)-3'), ... Authors: Xia, S, Wang, J, Konigsberg, W.H. Deposit date: 2013-02-04 Release date: 2014-02-19 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.02 Å) Cite: Alteration in the cavity size adjacent to the active site of RB69 DNA polymerase changes its conformational dynamics. Nucleic Acids Res., 41, 2013
4J2A	RB69 DNA Polymerase L415A Ternary Complex Descriptor: CALCIUM ION, DNA (5'-D(*GP*CP*GP*GP*AP*CP*TP*GP*CP*TP*TP*AP*C)-3'), DNA (5'-D(*TP*CP*GP*AP*GP*TP*AP*AP*GP*CP*AP*GP*TP*CP*CP*GP*CP*G)-3'), ... Authors: Xia, S, Wang, J, Konigsberg, W.H. Deposit date: 2013-02-04 Release date: 2014-02-19 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (1.8 Å) Cite: Alteration in the cavity size adjacent to the active site of RB69 DNA polymerase changes its conformational dynamics. Nucleic Acids Res., 41, 2013
2JSE	NMR reveals absence of hydrogen bonding in adjacent UU and AG mismatches in an isolated internal loop from ribosomal RNA. Descriptor: RNA (5'-R(*GP*GP*AP*GP*UP*GP*GP*CP*CP*GP*AP*AP*AP*GP*GP*CP*AP*UP*CP*UP*CP*C)-3') Authors: Shankar, N. Deposit date: 2007-07-03 Release date: 2007-11-20 Last modified: 2024-05-29 Method: SOLUTION NMR Cite: NMR Reveals the Absence of Hydrogen Bonding in Adjacent UU and AG Mismatches in an Isolated Internal Loop from Ribosomal RNA Biochemistry, 46, 2007
3LLM	Crystal Structure Analysis of a RNA Helicase Descriptor: ADENOSINE-5'-DIPHOSPHATE, ATP-dependent RNA helicase A, CACODYLATE ION, ... Authors: Schutz, P, Karlberg, T, Collins, R, Arrowsmith, C.H, Berglund, H, Bountra, C, Flodin, S, Flores, A, Graslund, S, Hammarstrom, M, Johansson, A, Johansson, I, Kallas, A, Kraulis, P, Kotenyova, T, Kotzsch, A, Markova, N, Moche, M, Nielsen, T.K, Nordlund, P, Nyman, T, Persson, C, Roos, A.K, Siponen, M.I, Svensson, L, Thorsell, A.G, Tresaugues, L, Van Den Berg, S, Wahlberg, E, Weigelt, J, Welin, M, Wisniewska, M, Schuler, H.M, Structural Genomics Consortium (SGC) Deposit date: 2010-01-29 Release date: 2010-05-12 Last modified: 2011-07-13 Method: X-RAY DIFFRACTION (2.8 Å) Cite: Crystal structure of human RNA helicase A (DHX9): structural basis for unselective nucleotide base binding in a DEAD-box variant protein. J.Mol.Biol., 400, 2010
4M8O	TERNARY COMPLEX OF DNA POLYMERASE EPSILON WITH AN INCOMING dATP Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, 2-AMINOETHANESULFONIC ACID, CHLORIDE ION, ... Authors: Sauer-Eriksson, A.E, Hogg, M, Osterman, P, Johansson, E. Deposit date: 2013-08-13 Release date: 2013-11-27 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.2 Å) Cite: Structural basis for processive DNA synthesis by yeast DNA polymerase epsilon. Nat.Struct.Mol.Biol., 21, 2014
1A9L	SOLUTION STRUCTURE OF A SUBSTRATE FOR THE ARCHAEAL PRE-TRNA SPLICING ENDONUCLEASES: THE BULGE-HELIX-BULGE MOTIF, NMR, 12 STRUCTURES Descriptor: PRE-TRNA BULGE-HELIX-BULGE MOTIF Authors: Diener, J.L, Moore, P.B. Deposit date: 1998-04-07 Release date: 1998-06-17 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: Solution structure of a substrate for the archaeal pre-tRNA splicing endonucleases: the bulge-helix-bulge motif. Mol.Cell, 1, 1998
4DOA	Ternary complex of dna polymerase beta with a dideoxy terminated primer and 2'-deoxyguanosine 5'-beta, gamma-monofluoromethylene triphosphate: non-interactive binding of s-isomer Descriptor: 2'-deoxy-5'-O-[(R)-{[(R)-[(S)-fluoro(phosphono)methyl](hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]guanosine, C C G A C C G C G C A T C A G C, CHLORIDE ION, ... Authors: Batra, V.K. Deposit date: 2012-02-09 Release date: 2012-06-13 Last modified: 2023-09-13 Method: X-RAY DIFFRACTION (2.051 Å) Cite: Beta,gamma-CHF- and beta,gamma-CHCl-dGTP Diastereomers: Synthesis, Discrete (31)P NMR Signatures, and Absolute Configurations of New Stereochemical Probes for DNA Polymerases J.Am.Chem.Soc., 134, 2012

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