PDB: 13252 resultsInfo pagesStatus searchChemie searchBIRD

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2ALZ	Ternary Complex of hPoli with DNA and dCTP Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, 5'-D(*AP*GP*GP*AP*CP*CP*(DOC))-3', 5'-D(*TP*GP*GP*GP*GP*TP*CP*CP*T)-3', ... Authors: Nair, D.T, Johnson, R.E, Prakash, L, Prakash, S, Aggarwal, A.K. Deposit date: 2005-08-08 Release date: 2005-10-25 Last modified: 2023-08-23 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Human DNA Polymerase iota Incorporates dCTP Opposite Template G via a G.C+ Hoogsteen Base Pair. Structure, 13, 2005
4DQR	Ternary complex of Bacillus DNA Polymerase I Large Fragment E658A, DNA duplex, and rCTP (paired with dG of template) in presence of Mn2+ Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, CYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*AP*TP*GP*GP*GP*AP*GP*TP*CP*AP*GP*G)-3'), ... Authors: Wang, W, Beese, L.S. Deposit date: 2012-02-16 Release date: 2012-06-06 Last modified: 2023-09-13 Method: X-RAY DIFFRACTION (1.95 Å) Cite: Structural factors that determine selectivity of a high fidelity DNA polymerase for deoxy-, dideoxy-, and ribonucleotides. J.Biol.Chem., 287, 2012
2VDW	Guanosine N7 methyl-transferase sub-complex (D1-D12) of the vaccinia virus mRNA capping enzyme Descriptor: MRNA-CAPPING ENZYME SMALL SUBUNIT, S-ADENOSYL-L-HOMOCYSTEINE, SULFATE ION, ... Authors: De la Pena, M, Kyrieleis, O.J.P, Cusack, S. Deposit date: 2007-10-12 Release date: 2008-05-13 Last modified: 2024-05-08 Method: X-RAY DIFFRACTION (2.7 Å) Cite: Structural Insights Into the Mechanism and Evolution of the Vaccinia Virus Mrna CAP N7 Methyl- Transferase. Embo J., 26, 2007
2LSN	Solution structure of PFV RNase H domain Descriptor: RNase H Authors: Leo, B, Schweimer, K, Woehrl, B. Deposit date: 2012-05-03 Release date: 2012-10-17 Last modified: 2024-05-15 Method: SOLUTION NMR Cite: The solution structure of the prototype foamy virus RNase H domain indicates an important role of the basic loop in substrate binding. Retrovirology, 9, 2012
2M24	NMR solution structure of the d3'-hairpin including the exon binding site 1 (EBS1) of the group II intron Sc.ai5gamma Descriptor: RNA (29-MER) Authors: Kruschel, D, Skilandat, M, Sigel, R.K.O. Deposit date: 2012-12-12 Release date: 2013-12-18 Last modified: 2024-05-01 Method: SOLUTION NMR Cite: NMR structure of the 5' splice site in the group IIB intron Sc.ai5 gamma--conformational requirements for exon-intron recognition. Rna, 20, 2014
6N2S	Ternary complex crystal structure of DNA polymerase Beta with 5-carboxy-dC (5-caC) at the templating position Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]guanosine, DNA (5'-D(*CP*CP*GP*AP*CP*(1CC)P*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-3'), ... Authors: Batra, V.K, Wilson, S.H. Deposit date: 2018-11-14 Release date: 2019-03-27 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (2.457 Å) Cite: Molecular basis for the faithful replication of 5-methylcytosine and its oxidized forms by DNA polymerase beta. J.Biol.Chem., 294, 2019
6N2T	Ternary complex crystal structure of DNA polymerase Beta with 5-hydroxymethyl-dC (5-hmC) at the templating position Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]guanosine, DNA (5'-D(*CP*CP*GP*AP*CP*(5HC)P*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*C)-3'), ... Authors: Batra, V.K, Wilson, S.H. Deposit date: 2018-11-14 Release date: 2019-03-27 Last modified: 2023-10-11 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Molecular basis for the faithful replication of 5-methylcytosine and its oxidized forms by DNA polymerase beta. J.Biol.Chem., 294, 2019
4JWN	Ternary complex of D256A mutant of DNA Polymerase Beta Descriptor: 2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*CP*AP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ... Authors: Batra, V.K, Perera, L, Ping, L, Shock, D.D, Beard, W.A, Pedersen, L.C, Pedersen, L.G, Wilson, S.H. Deposit date: 2013-03-27 Release date: 2013-06-26 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.39 Å) Cite: Amino Acid Substitution in the Active Site of DNA Polymerase beta Explains the Energy Barrier of the Nucleotidyl Transfer Reaction. J.Am.Chem.Soc., 135, 2013
3CQ8	Ternary complex of the L415F mutant RB69 exo(-)polymerase Descriptor: CALCIUM ION, DNA (5'-D(*DAP*DCP*DAP*DGP*DGP*DTP*DAP*DAP*DGP*DCP*DAP*DGP*DTP*DCP*DCP*DGP*DCP*DG)-3'), DNA (5'-D(*DGP*DCP*DGP*DGP*DAP*DCP*DTP*DGP*DCP*DTP*DTP*DAP*DCP*DC)-3'), ... Authors: Zhong, X, Pedersen, L.C, Kunkel, T.A. Deposit date: 2008-04-02 Release date: 2008-09-02 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (2.5 Å) Cite: Characterization of a replicative DNA polymerase mutant with reduced fidelity and increased translesion synthesis capacity. Nucleic Acids Res., 36, 2008
1SC5	Sigma-28(FliA)/FlgM complex Descriptor: RNA polymerase sigma factor FliA, anti-sigma factor FlgM Authors: Sorenson, M.K, Ray, S.S, Darst, S.A. Deposit date: 2004-02-11 Release date: 2004-04-06 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (3.26 Å) Cite: Crystal structure of the flagellar sigma/anti-sigma complex sigma(28)/FlgM reveals an intact sigma factor in an inactive conformation. Mol.Cell, 14, 2004
1H3L	N-terminal fragment of SigR from Streptomyces coelicolor Descriptor: RNA POLYMERASE SIGMA FACTOR Authors: Li, W, Stevenson, C.E.M, Burton, N, Jakimowicz, P, Paget, M.S.B, Buttner, M.J, Lawson, D.M, Kleanthous, C. Deposit date: 2002-09-10 Release date: 2002-10-03 Last modified: 2024-05-08 Method: X-RAY DIFFRACTION (2.375 Å) Cite: Identification and Structure of the Anti-Sigma Factor-Binding Domain of the Disulfide-Stress Regulated Sigma Factor Sigma(R) from Streptomyces Coelicolor J.Mol.Biol., 323, 2002
3MGI	Ternary complex of a DNA polymerase lambda loop mutant Descriptor: 2',3'-DIDEOXY-THYMIDINE-5'-TRIPHOSPHATE, DNA, DNA (5'-D(*CP*AP*GP*TP*AP*T)-3'), ... Authors: Garcia-Diaz, M, Bebenek, K, Zhou, R.Z, Povirk, L.F, Kunkel, T. Deposit date: 2010-04-06 Release date: 2010-05-19 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (2.603 Å) Cite: Loop 1 modulates the fidelity of DNA polymerase lambda Nucleic Acids Res., 38, 2010
4DOB	Ternary complex of DNA polymerase beta with a dideoxy terminated primer and 2'-deoxyguanosine 5'-beta, gamma-monochlororomethylene triphosphate: Stereoselective binding of R-isomer Descriptor: 5'-O-[(R)-{[(R)-[(R)-chloro(phosphono)methyl](hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]-2'-deoxyguanosine, 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 (2.05 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
2M2W	Ternary complex of ASFV Pol X with DNA and MgdGTP Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 5'-D(P*GP*GP*CP*GP*AP*AP*GP*CP*CP*GP*GP*GP*TP*GP*CP*GP*AP*AP*GP*CP*AP*CP*(DOC))-3', MAGNESIUM ION, ... Authors: Wu, W, Su, M, Tsai, M. Deposit date: 2013-01-03 Release date: 2014-04-02 Last modified: 2024-05-01 Method: SOLUTION NMR Cite: How a low-fidelity DNA polymerase chooses non-Watson-Crick from Watson-Crick incorporation. J.Am.Chem.Soc., 136, 2014
3P1G	Crystal Structure of the Xenotropic Murine Leukemia Virus-Related Virus (XMRV) RNase H Domain Descriptor: MAGNESIUM ION, Xenotropic Murine Leukemia Virus-Related Virus (XMRV) RNase H Domain Authors: Kirby, K.A, Sarafianos, S.G. Deposit date: 2010-09-30 Release date: 2010-10-13 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (1.5 Å) Cite: Structural and Inhibition Studies of the RNase H Function of Xenotropic Murine Leukemia Virus-Related Virus Reverse Transcriptase. Antimicrob.Agents Chemother., 56, 2012
1RP3	Cocrystal structure of the flagellar sigma/anti-sigma complex, Sigma-28/FlgM Descriptor: RNA polymerase sigma factor SIGMA-28 (FliA), anti sigma factor FlgM Authors: Sorenson, M.K, Ray, S.S, Darst, S.A. Deposit date: 2003-12-02 Release date: 2004-04-06 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Crystal Structure of the Flagellar Sigma/Anti-Sigma Complex Sigma(28)/FlgM Reveals an Intact Sigma Factor in an Inactive Conformation Mol.Cell, 14, 2004
1G5I	CRYSTAL STRUCTURE OF THE ACCESSORY SUBUNIT OF MURINE MITOCHONDRIAL POLYMERASE GAMMA Descriptor: GLYCEROL, MITOCHONDRIAL DNA POLYMERASE ACCESSORY SUBUNIT, SODIUM ION Authors: Carrodeguas, J.A, Theis, K, Bogenhagen, D.F, Kisker, C. Deposit date: 2000-11-01 Release date: 2001-03-14 Last modified: 2023-08-09 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Crystal structure and deletion analysis show that the accessory subunit of mammalian DNA polymerase gamma, Pol gamma B, functions as a homodimer. Mol.Cell, 7, 2001
1G5H	CRYSTAL STRUCTURE OF THE ACCESSORY SUBUNIT OF MURINE MITOCHONDRIAL POLYMERASE GAMMA Descriptor: GLYCEROL, MITOCHONDRIAL DNA POLYMERASE ACCESSORY SUBUNIT, SODIUM ION Authors: Carrodeguas, J.A, Theis, K, Bogenhagen, D.F, Kisker, C. Deposit date: 2000-11-01 Release date: 2001-03-14 Last modified: 2017-10-04 Method: X-RAY DIFFRACTION (1.95 Å) Cite: Crystal structure and deletion analysis show that the accessory subunit of mammalian DNA polymerase gamma, Pol gamma B, functions as a homodimer. Mol.Cell, 7, 2001
1O4X	TERNARY COMPLEX OF THE DNA BINDING DOMAINS OF THE OCT1 AND SOX2 TRANSCRIPTION FACTORS WITH A 19MER OLIGONUCLEOTIDE FROM THE HOXB1 REGULATORY ELEMENT Descriptor: 5'-D(*CP*AP*TP*TP*AP*GP*CP*AP*TP*GP*AP*CP*AP*AP*AP*GP*AP*CP*A)-3', 5'-D(*TP*GP*TP*CP*TP*TP*TP*GP*TP*CP*AP*TP*GP*CP*TP*AP*AP*TP*G)-3', Transcription factor SOX-2, ... Authors: Clore, G.M, Williams, D.C. Deposit date: 2003-07-17 Release date: 2004-01-27 Last modified: 2023-12-27 Method: SOLUTION NMR Cite: Molecular basis for synergistic transcriptional activation by Oct1 and Sox2 revealed from the solution structure of the 42-kDa Oct1.Sox2.Hoxb1-DNA ternary transcription factor complex. J.Biol.Chem., 279, 2004
3IAY	Ternary complex of DNA polymerase delta Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, 5'-D(*AP*TP*CP*CP*TP*CP*CP*CP*CP*TP*AP*(DOC))-3', 5'-D(*TP*AP*AP*GP*GP*TP*AP*GP*GP*GP*GP*AP*GP*GP*AP*T)-3', ... Authors: Swan, M.K, Aggarwal, A.K. Deposit date: 2009-07-15 Release date: 2009-09-22 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (2 Å) Cite: Structural basis of high-fidelity DNA synthesis by yeast DNA polymerase delta Nat.Struct.Mol.Biol., 16, 2009
1SL2	Ternary 5' complex of T7 DNA polymerase with a DNA primer/template containing a cis-syn thymine dimer on the template and an incoming nucleotide Descriptor: 2',3'-DIDEOXYADENOSINE-5'-TRIPHOSPHATE, 5'-D(*CP*CP*CP*(TTD)P*AP*GP*GP*CP*AP*CP*TP*GP*GP*CP*CP*GP*TP*CP*GP*TP*TP*TP*TP*CP*G)-3', 5'-D(*CP*GP*AP*AP*AP*AP*CP*GP*AP*CP*GP*GP*CP*CP*AP*GP*TP*GP*CP*CP*TP*(2DA))-3', ... Authors: Li, Y, Dutta, S, Doublie, S, Bdour, H.M, Taylor, J.S, Ellenberger, T. Deposit date: 2004-03-05 Release date: 2004-07-06 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Nucleotide insertion opposite a cis-syn thymine dimer by a replicative DNA polymerase from bacteriophage T7. Nat.Struct.Mol.Biol., 11, 2004
1SL0	Ternary 3' complex of T7 DNA polymerase with a DNA primer/template containing a disordered cis-syn thymine dimer on the template and an incoming nucleotide Descriptor: 2',3'-DIDEOXYADENOSINE-5'-TRIPHOSPHATE, 5'-D(*CP*CP*CP*(TTD)P*AP*GP*GP*CP*AP*CP*TP*GP*GP*CP*CP*GP*TP*CP*GP*TP*TP*TP*TP*CP*G)-3', 5'-D(*CP*GP*AP*AP*AP*AP*CP*GP*AP*CP*GP*GP*CP*CP*AP*GP*TP*GP*CP*CP*(2DT))-3', ... Authors: Li, Y, Dutta, S, Doublie, S, Bdour, H.M, Taylor, J.S, Ellenberger, T. Deposit date: 2004-03-05 Release date: 2004-07-06 Last modified: 2024-02-14 Method: X-RAY DIFFRACTION (3.2 Å) Cite: Nucleotide insertion opposite a cis-syn thymine dimer by a replicative DNA polymerase from bacteriophage T7. Nat.Struct.Mol.Biol., 11, 2004
4DQQ	Ternary complex of Bacillus DNA Polymerase I Large Fragment E658A, DNA duplex, and rCTP (paired with dG of template) in presence of Mg2+ Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, CYTIDINE-5'-TRIPHOSPHATE, ... Authors: Wang, W, Beese, L.S. Deposit date: 2012-02-16 Release date: 2012-06-06 Last modified: 2023-09-13 Method: X-RAY DIFFRACTION (1.595 Å) Cite: Structural factors that determine selectivity of a high fidelity DNA polymerase for deoxy-, dideoxy-, and ribonucleotides. J.Biol.Chem., 287, 2012
4DSF	Ternary complex of Bacillus DNA Polymerase I Large Fragment F710Y, DNA duplex, and rCTP (paired with dG of template) in presence of Mn2+ Descriptor: CYTIDINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*AP*TP*GP*GP*GP*AP*GP*TP*CP*AP*GP*G)-3'), DNA (5'-D(*CP*CP*TP*GP*AP*CP*TP*CP*(DOC))-3'), ... Authors: Wang, W, Beese, L.S. Deposit date: 2012-02-18 Release date: 2012-06-06 Last modified: 2023-09-13 Method: X-RAY DIFFRACTION (1.661 Å) Cite: Structural factors that determine selectivity of a high fidelity DNA polymerase for deoxy-, dideoxy-, and ribonucleotides. J.Biol.Chem., 287, 2012
2DPI	Ternary complex of hPoli with DNA and dCTP Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, 5'-D(*AP*GP*GP*AP*CP*CP*(DOC))-3', 5'-D(*TP*(EDA)P*GP*GP*GP*TP*CP*CP*T)-3', ... Authors: Nair, D.T, Johnson, R.E, Prakash, L, Prakash, S, Aggarwal, A.K. Deposit date: 2006-05-12 Release date: 2006-07-04 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Hoogsteen base pair formation promotes synthesis opposite the 1,N(6)-ethenodeoxyadenosine lesion by human DNA polymerase iota. Nat.Struct.Mol.Biol., 13, 2006

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