PDB: 8717 resultsInfo pagesStatus searchChemie searchBIRD

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4P36	Crystal structure of DJ-1 With Zn(II) bound (crystal 2) Descriptor: 2,5,8,11,14,17-HEXAOXANONADECAN-19-OL, Protein DJ-1, ZINC ION Authors: Tashiro, S, Wu, C.-X, Hoang, Q.Q, Caaveiro, J.M.M, Tsumoto, K. Deposit date: 2014-03-05 Release date: 2014-04-09 Last modified: 2023-12-27 Method: X-RAY DIFFRACTION (1.182 Å) Cite: Thermodynamic and Structural Characterization of the Specific Binding of Zn(II) to Human Protein DJ-1. Biochemistry, 53, 2014
4P35	Crystal structure of DJ-1 with Zinc(II) bound (crystal I) Descriptor: CHLORIDE ION, GLYCEROL, Protein DJ-1, ... Authors: Tashiro, S, Wu, C.-X, Hoang, Q.Q, Caaveiro, J.M.M, Tsumoto, K. Deposit date: 2014-03-05 Release date: 2014-04-09 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (1.75 Å) Cite: Thermodynamic and Structural Characterization of the Specific Binding of Zn(II) to Human Protein DJ-1. Biochemistry, 53, 2014
7ICJ	DNA POLYMERASE BETA (POL B) (E.C.2.7.7.7) COMPLEXED WITH SIX BASE PAIRS OF DNA; SOAKED IN THE PRESENCE OF CUCL2 (0.1 MILLIMOLAR) Descriptor: COPPER (II) ION, DNA (5'-D(*CP*AP*GP*AP*TP*G)-3'), DNA (5'-D(*CP*AP*TP*CP*TP*G)-3'), ... Authors: Pelletier, H, Sawaya, M.R. Deposit date: 1996-04-19 Release date: 1996-11-15 Last modified: 2023-08-02 Method: X-RAY DIFFRACTION (3.5 Å) Cite: A structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta Biochemistry, 35, 1996
7TO2	Cryo-EM structure of RIG-I bound to the internal sites of p3SLR30 (+ATP) Descriptor: ADENOSINE-5'-DIPHOSPHATE, Antiviral innate immune response receptor RIG-I, MAGNESIUM ION, ... Authors: Wang, W, Pyle, A.M. Deposit date: 2022-01-22 Release date: 2022-11-02 Last modified: 2024-06-05 Method: ELECTRON MICROSCOPY (3.2 Å) Cite: The RIG-I receptor adopts two different conformations for distinguishing host from viral RNA ligands. Mol.Cell, 82, 2022
6FBE	KlenTaq DNA polymerase processing a modified primer - bearing the modification upstream at the third primer nucleotide. Descriptor: 1,2-ETHANEDIOL, 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]guanosine, DNA (5'-D(*AP*AP*AP*CP*GP*GP*GP*TP*GP*CP*GP*TP*GP*GP*TP*C)-3'), ... Authors: Kropp, H.M, Diederichs, K, Marx, A. Deposit date: 2017-12-19 Release date: 2018-09-26 Last modified: 2024-05-08 Method: X-RAY DIFFRACTION (1.589 Å) Cite: Snapshots of a modified nucleotide moving through the confines of a DNA polymerase. Proc. Natl. Acad. Sci. U.S.A., 115, 2018
1TQE	Mechanism of recruitment of class II histone deacetylases by myocyte enhancer factor-2 Descriptor: Histone deacetylase 9, MEF2 binding site of nur77 promoter, Myocyte-specific enhancer factor 2B Authors: Chen, L, Han, A, He, J, Wu, Y, Liu, J.O. Deposit date: 2004-06-17 Release date: 2004-12-21 Last modified: 2023-08-23 Method: X-RAY DIFFRACTION (2.7 Å) Cite: Mechanism of Recruitment of Class II Histone Deacetylases by Myocyte Enhancer Factor-2. J.Mol.Biol., 345, 2005
5DDY	Binary complex of human Polymerase lambda with dCTP Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA polymerase lambda, MAGNESIUM ION, ... Authors: Liu, M.S, Tsai, M.D. Deposit date: 2015-08-25 Release date: 2016-02-24 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (3.36 Å) Cite: Structural Mechanism for the Fidelity Modulation of DNA Polymerase lambda J.Am.Chem.Soc., 138, 2016
5OXJ	Crystal structure of KlenTaq mutant M747K in a closed ternary complex with a O6-MeG:BenziTP base pair Descriptor: ACETATE ION, DNA polymerase I, thermostable, ... Authors: Betz, K, Diederichs, K, Marx, A. Deposit date: 2017-09-06 Release date: 2017-11-29 Last modified: 2024-01-17 Method: X-RAY DIFFRACTION (2 Å) Cite: Structural basis for the selective incorporation of an artificial nucleotide opposite a DNA adduct by a DNA polymerase. Chem. Commun. (Camb.), 53, 2017
2N0Y	NMR structure of the complex between the C-terminal domain of the Rift Valley fever virus protein NSs and the PH domain of the Tfb1 subunit of TFIIH Descriptor: Non-structural protein NS-S, RNA polymerase II transcription factor B subunit 1 Authors: Cyr, N, de la Fuente, C, Lecoq, L, Guendel, I, Chabot, P.R, Kehn-Hall, K, Omichinski, J.G. Deposit date: 2015-03-18 Release date: 2015-04-22 Last modified: 2024-05-15 Method: SOLUTION NMR Cite: A Omega XaV motif in the Rift Valley fever virus NSs protein is essential for degrading p62, forming nuclear filaments and virulence. Proc.Natl.Acad.Sci.USA, 112, 2015
1O0B	CRYSTAL STRUCTURE OF L-GLUTAMINE AND AMPCPP BOUND TO GLUTAMINE AMINOACYL TRNA SYNTHETASE Descriptor: ADENOSINE MONOPHOSPHATE, GLUTAMINE, Glutaminyl tRNA, ... Authors: Bullock, T.L, Perona, J.J. Deposit date: 2003-02-20 Release date: 2003-04-15 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (2.7 Å) Cite: Amino Acid Discrimination by a class I aminoacyl-tRNA synthetase specified by negative determinants J.Mol.Biol., 328, 2003
1O0C	CRYSTAL STRUCTURE OF L-GLUTAMATE AND AMPCPP BOUND TO GLUTAMINE AMINOACYL TRNA SYNTHETASE Descriptor: ADENOSINE MONOPHOSPHATE, GLUTAMIC ACID, Glutaminyl tRNA, ... Authors: Bullock, T.L, Perona, J.J. Deposit date: 2003-02-20 Release date: 2003-04-15 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (2.7 Å) Cite: Amino Acid Discrimination by a class I aminoacyl-tRNA synthetase specified by negative determinants J.Mol.Biol., 328, 2003
7OA4	Crystal structure of the N-terminal endonuclease domain of La Crosse virus L-protein bound to compound L-742,001 Descriptor: (2Z)-4-[1-benzyl-4-(4-chlorobenzyl)piperidin-4-yl]-2-hydroxy-4-oxobut-2-enoic acid, FORMIC ACID, MANGANESE (II) ION, ... Authors: Feracci, M, Hernandez, S, Vincentelli, R, Ferron, F, Reguera, J, Canard, B, Alvarez, K. Deposit date: 2021-04-19 Release date: 2022-08-03 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (2.9 Å) Cite: Crystal structure of the N-terminal endonuclease domain of La Crosse virus L-protein bound to compound L-742,001 To Be Published
3FWC	Sac3:Sus1:Cdc31 complex Descriptor: Cell division control protein 31, Nuclear mRNA export protein SAC3, Protein SUS1, ... Authors: Stewart, M, Jani, D. Deposit date: 2009-01-17 Release date: 2009-04-14 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (2.7 Å) Cite: Sus1, Cdc31, and the Sac3 CID region form a conserved interaction platform that promotes nuclear pore association and mRNA export. Mol.Cell, 33, 2009
3FWB	Sac3:Sus1:Cdc31 complex Descriptor: Cell division control protein 31, Nuclear mRNA export protein SAC3, Protein SUS1 Authors: Stewart, M, Jani, D. Deposit date: 2009-01-17 Release date: 2009-04-14 Last modified: 2024-04-03 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Sus1, Cdc31, and the Sac3 CID region form a conserved interaction platform that promotes nuclear pore association and mRNA export. Mol.Cell, 33, 2009
4N56	Binary complex structure of Klenow fragment of Taq DNA polymerase I707L mutant (Cs3C KlenTaq) with DNA Descriptor: 5'-D(*AP*AP*AP*GP*GP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3', 5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(DOC))-3', DNA polymerase I, ... Authors: Wu, E.Y. Deposit date: 2013-10-09 Release date: 2015-01-21 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.2 Å) Cite: A Conservative Isoleucine to Leucine Mutation Causes Major Rearrangements and Cold Sensitivity in KlenTaq1 DNA Polymerase. Biochemistry, 54, 2015
6Q4T	KOD DNA pol in a closed ternary complex with 7-deaza-7-(2-(2-hydroxyethoxy)-N-(prop-2-yn-1-yl)acetamide)-2-dATP Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*CP*AP*C)-3'), DNA (5'-D(P*AP*AP*CP*TP*GP*TP*GP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3'), ... Authors: Kropp, H.M, Diederichs, K, Marx, A. Deposit date: 2018-12-06 Release date: 2019-02-27 Last modified: 2024-01-24 Method: X-RAY DIFFRACTION (1.997 Å) Cite: The Structure of an Archaeal B-Family DNA Polymerase in Complex with a Chemically Modified Nucleotide. Angew.Chem.Int.Ed.Engl., 58, 2019
2HOJ	Crystal structure of an E. coli thi-box riboswitch bound to thiamine pyrophosphate, manganese ions Descriptor: MAGNESIUM ION, MANGANESE (II) ION, THIAMINE DIPHOSPHATE, ... Authors: Edwards, T.E, Ferre-D'Amare, A.R. Deposit date: 2006-07-14 Release date: 2006-09-19 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Crystal Structures of the Thi-Box Riboswitch Bound to Thiamine Pyrophosphate Analogs Reveal Adaptive RNA-Small Molecule Recognition Structure, 14, 2006
2LBR	Conformation Effects of Base Modification on the Anticodon Stem-loop of Bacillus subtilis tRNATYR Descriptor: RNA (5'-R(*GP*GP*GP*GP*AP*CP*UP*GP*UP*AP*(6IA)P*AP*(PSU)P*CP*CP*CP*C)-3') Authors: Denmon, A.P, Wang, J, Nikonowicz, E.P. Deposit date: 2011-04-05 Release date: 2011-08-03 Last modified: 2024-05-15 Method: SOLUTION NMR Cite: Conformation Effects of Base Modification on the Anticodon Stem-Loop of Bacillus subtilis tRNA(Tyr). J.Mol.Biol., 412, 2011
3PY8	Crystal structure of a mutant of the large fragment of DNA polymerase I from thermus aquaticus in a closed ternary complex with DNA and ddCTP Descriptor: 2',3'-DIDEOXYCYTIDINE 5'-TRIPHOSPHATE, DNA (5'-D(*AP*A*AP*GP*GP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3'), DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(DOC))-3'), ... Authors: Schnur, A, Marx, A, Welte, W, Diederichs, K. Deposit date: 2010-12-12 Release date: 2011-06-15 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (1.74 Å) Cite: Learning from Directed Evolution: Thermus aquaticus DNA Polymerase Mutants with Translesion Synthesis Activity. Chembiochem, 12, 2011
6Q4U	KlenTaq DNA pol in a closed ternary complex with 7-deaza-7-(2-(2-hydroxyethoxy)-N-(prop-2-yn-1-yl)acetamide)-2-dATP Descriptor: 1,2-ETHANEDIOL, DNA (5'-D(*AP*AP*CP*TP*GP*TP*GP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3'), DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*CP*AP*(DOC))-3'), ... Authors: Kropp, H.M, Diederichs, K, Marx, A. Deposit date: 2018-12-06 Release date: 2019-02-27 Last modified: 2024-01-24 Method: X-RAY DIFFRACTION (2.005 Å) Cite: The Structure of an Archaeal B-Family DNA Polymerase in Complex with a Chemically Modified Nucleotide. Angew.Chem.Int.Ed.Engl., 58, 2019
6CYT	HIV-1 TAR loop in complex with Tat:AFF4:P-TEFb Descriptor: AF4/FMR2 family member 4, Cyclin-T1, Cyclin-dependent kinase 9, ... Authors: Schulze Gahmen, U, Hurley, J.H. Deposit date: 2018-04-06 Release date: 2018-12-12 Last modified: 2023-10-04 Method: X-RAY DIFFRACTION (3.5 Å) Cite: Structural mechanism for HIV-1 TAR loop recognition by Tat and the super elongation complex. Proc. Natl. Acad. Sci. U.S.A., 115, 2018
4Q8E	Human DNA polymerase eta inserting dCMPNPP opposite a phenanthriplatin adducted G Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]cytidine, 5'-D(*AP*GP*TP*GP*TP*GP*AP*G)-3', 5'-D(*CP*AP*TP*GP*CP*TP*CP*AP*CP*AP*CP*T)-3', ... Authors: Gregory, M.T, Yang, W. Deposit date: 2014-04-26 Release date: 2014-07-02 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (1.549 Å) Cite: Structural and mechanistic studies of polymerase eta bypass of phenanthriplatin DNA damage. Proc.Natl.Acad.Sci.USA, 111, 2014
4Q8F	Human DNA polymerase eta extending primer immediately after a phenanthriplatin adducted G Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]guanosine, 5'-D(*AP*GP*TP*GP*TP*GP*AP*C)-3', 5'-D(*CP*AP*TP*CP*GP*TP*CP*AP*CP*AP*CP*T)-3', ... Authors: Gregory, M.T, Yang, W. Deposit date: 2014-04-26 Release date: 2014-07-02 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.797 Å) Cite: Structural and mechanistic studies of polymerase eta bypass of phenanthriplatin DNA damage. Proc.Natl.Acad.Sci.USA, 111, 2014
2PFQ	Manganese promotes catalysis in a DNA polymerase lambda-DNA crystal Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, DNA polymerase lambda, Downstream Primer, ... Authors: Garcia-Diaz, M, Bebenek, K, Krahn, J.M, Pedersen, L.C, Kunkel, T.A. Deposit date: 2007-04-05 Release date: 2007-05-15 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (2.1 Å) Cite: Role of the catalytic metal during polymerization by DNA polymerase lambda. DNA Repair, 6, 2007
2PFO	DNA Polymerase lambda in complex with DNA and dUPNPP Descriptor: 1,2-ETHANEDIOL, 2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE, DNA polymerase lambda, ... Authors: Garcia-Diaz, M, Bebenek, K, Krahn, J.M, Pedersen, L.C, Kunkel, T.A. Deposit date: 2007-04-05 Release date: 2007-05-15 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (2 Å) Cite: Role of the catalytic metal during polymerization by DNA polymerase lambda. DNA Repair, 6, 2007

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