PDB: 13252 resultsInfo pagesStatus searchChemie searchBIRD

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8JVV	Crystal structure of the chimeric protein mkaL2_v1.1 Descriptor: mkaL2_v1.1 Authors: Yagi, S, Tagami, S. Deposit date: 2023-06-28 Release date: 2024-07-03 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Missing-link fold reveals the evolutionary pathway between RNA polymerase and ribosomal proteins To Be Published
8JVX	Crystal structure of the dimeric DZBB fold protein mkaL2_v1.2_Z Descriptor: mkaL2_v1.2_Z Authors: Yagi, S, Tagami, S. Deposit date: 2023-06-28 Release date: 2024-07-03 Method: X-RAY DIFFRACTION (1.801 Å) Cite: Missing-link fold reveals the evolutionary pathway between RNA polymerase and ribosomal proteins To Be Published
8JVO	Crystal structure of the chemically synthesized mk2h_deltaMILPYS peptide homodimer, DZBB form Descriptor: SULFATE ION, mk2h_deltaMILPYS Authors: Yagi, S, Tagami, S. Deposit date: 2023-06-28 Release date: 2024-07-03 Method: X-RAY DIFFRACTION (1.701 Å) Cite: Missing-link fold reveals the evolutionary pathway between RNA polymerase and ribosomal proteins To Be Published
5TB9	Precatalytic ternary complex of Human DNA Polymerase Beta in closed conformation With Gapped DNA substrate incoming (-)FTC-TP and Mn2+. Descriptor: 10- MER PRIMER, 16- MER TEMPLATE, 5-MER PHOSPHORYLATED DOWNSTREAM PRIMER, ... Authors: Vyas, R, Suo, Z. Deposit date: 2016-09-11 Release date: 2017-01-11 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2.49 Å) Cite: Structural Insights into the Post-Chemistry Steps of Nucleotide Incorporation Catalyzed by a DNA Polymerase. J. Am. Chem. Soc., 139, 2017
5TBB	Postcatalytic ternary complex of Human DNA Polymerase Beta with Gapped DNA substrate, incorporated (-)FTC and PPi. Descriptor: 10- MER PRIMER, 16- MER TEMPLATE, 5-MER PHOSPHORYLATED DOWNSTREAM PRIMER, ... Authors: Vyas, R, Suo, Z. Deposit date: 2016-09-11 Release date: 2017-01-11 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2.39 Å) Cite: Structural Insights into the Post-Chemistry Steps of Nucleotide Incorporation Catalyzed by a DNA Polymerase. J. Am. Chem. Soc., 139, 2017
5VRY	Human DNA polymerase beta 8-oxoG:dC extension with dTTP after 20 s Descriptor: CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*CP*AP*(8OG)P*GP*CP*GP*CP*AP*TP*CP*AP*G)-3'), DNA (5'-D(*CP*TP*GP*AP*TP*GP*CP*GP*CP*CP*T)-3'), ... Authors: Reed, A.J, Suo, Z. Deposit date: 2017-05-11 Release date: 2017-07-19 Last modified: 2023-10-04 Method: X-RAY DIFFRACTION (1.9 Å) Cite: Time-Dependent Extension from an 8-Oxoguanine Lesion by Human DNA Polymerase Beta. J. Am. Chem. Soc., 139, 2017
5VS3	Human DNA polymerase beta 8-oxoG:dA extension with dTTP after 90 s Descriptor: ACETATE ION, DNA (5'-D(*CP*CP*GP*AP*CP*AP*(8OG)P*GP*CP*GP*CP*AP*TP*CP*AP*G)-3'), DNA (5'-D(*CP*TP*GP*AP*TP*GP*CP*GP*CP*AP*T)-3'), ... Authors: Reed, A.J, Suo, Z. Deposit date: 2017-05-11 Release date: 2017-07-19 Last modified: 2023-10-04 Method: X-RAY DIFFRACTION (1.7 Å) Cite: Time-Dependent Extension from an 8-Oxoguanine Lesion by Human DNA Polymerase Beta. J. Am. Chem. Soc., 139, 2017
3HT3	Crystal structure of fragment DNA polymerase I from Bacillus stearothermophilus V713P mutant bound to G:dCTP Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, 5'-D(*AP*CP*GP*GP*CP*GP*TP*GP*AP*TP*CP*G)-3', 5'-D(*CP*GP*AP*TP*CP*AP*CP*GP*(DOC))-3', ... Authors: Wu, E.Y, Beese, L.S. Deposit date: 2009-06-11 Release date: 2010-07-14 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (1.7 Å) Cite: The structure of a high fidelity DNA polymerase bound to a mismatched nucleotide reveals an "ajar" intermediate conformation in the nucleotide selection mechanism. J.Biol.Chem., 286, 2011
5TBC	PRECATALYTIC TERNARY COMPLEX OF HUMAN DNA POLYMERASE BETA WITH GAPPED DNA SUBSTRATE, INCORPORATED (-)3TC-MP AND AN ANOTHER INCOMING (-)3TC-TP NUCLEOTIDE. Descriptor: 10- MER PRIMER, 16- MER TEMPLATE, 5-MER PHOSPHORYLATED DOWNSTREAM PRIMER, ... Authors: Vyas, R, Suo, Z. Deposit date: 2016-09-11 Release date: 2017-01-11 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (1.85 Å) Cite: Structural Insights into the Post-Chemistry Steps of Nucleotide Incorporation Catalyzed by a DNA Polymerase. J. Am. Chem. Soc., 139, 2017
4M3W	RB69 DNA polymerase ternary complex with dT/dG at position n-4 of primer/template duplex Descriptor: ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA polymerase, ... Authors: Xia, S, Konigsberg, W.H. Deposit date: 2013-08-06 Release date: 2014-02-12 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.1 Å) Cite: Mispairs with Watson-Crick base-pair geometry observed in ternary complexes of an RB69 DNA polymerase variant. Protein Sci., 23, 2014
4M3Z	RB69 DNA polymerase ternary complex with dG/dT at position n-2 of primer/tempLate duplex Descriptor: ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA polymerase, ... Authors: Xia, S, Konigsberg, W.H. Deposit date: 2013-08-06 Release date: 2014-02-12 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (1.84 Å) Cite: Mispairs with Watson-Crick base-pair geometry observed in ternary complexes of an RB69 DNA polymerase variant. Protein Sci., 23, 2014
4M41	RB69 DNA polymerase ternary complex with dG/dT at position n-3 of primer/tempLate duplex Descriptor: ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA polymerase, ... Authors: Xia, S, Konigsberg, W.H. Deposit date: 2013-08-06 Release date: 2014-02-12 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.15 Å) Cite: Mispairs with Watson-Crick base-pair geometry observed in ternary complexes of an RB69 DNA polymerase variant. Protein Sci., 23, 2014
4M3X	RB69 DNA polymerase ternary complex with dT/dG at position n-5 of primer/template duplex Descriptor: ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA polymerase, ... Authors: Xia, S, Konigsberg, W.H. Deposit date: 2013-08-06 Release date: 2014-02-12 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.2 Å) Cite: Mispairs with Watson-Crick base-pair geometry observed in ternary complexes of an RB69 DNA polymerase variant. Protein Sci., 23, 2014
3HP6	Crystal structure of fragment DNA polymerase I from Bacillus stearothermophilus F710Y mutant bound to G:T mismatch Descriptor: 2',3'-DIDEOXY-THYMIDINE-5'-TRIPHOSPHATE, 5'-D(*AP*CP*GP*CP*CP*GP*TP*GP*AP*TP*CP*G)-3', 5'-D(*CP*GP*AP*TP*CP*AP*CP*GP*(DDG))-3', ... Authors: Wu, E.Y, Beese, L.S. Deposit date: 2009-06-03 Release date: 2010-06-23 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (1.81 Å) Cite: The structure of a high fidelity DNA polymerase bound to a mismatched nucleotide reveals an "ajar" intermediate conformation in the nucleotide selection mechanism. J.Biol.Chem., 286, 2011
5TB8	Precatalytic ternary complex of Human DNA Polymerase Beta in closed conformation With Gapped DNA substrate incoming (-)3TC-TP and Mn2+. Descriptor: 10- MER PRIMER, 16- MER TEMPLATE, 5-MER PHOSPHORYLATED DOWNSTREAM PRIME, ... Authors: Vyas, R, Suo, Z. Deposit date: 2016-09-11 Release date: 2017-01-11 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2 Å) Cite: Structural Insights into the Post-Chemistry Steps of Nucleotide Incorporation Catalyzed by a DNA Polymerase. J. Am. Chem. Soc., 139, 2017
4M42	RB69 DNA polymerase ternary complex with dG/dT at position n-4 of primer/tempLate duplex Descriptor: ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA polymerase, ... Authors: Xia, S, Konigsberg, W.H. Deposit date: 2013-08-06 Release date: 2014-02-12 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.04 Å) Cite: Mispairs with Watson-Crick base-pair geometry observed in ternary complexes of an RB69 DNA polymerase variant. Protein Sci., 23, 2014
6W2M	Abortive ternary complex crystal structure of DNA polymerase Beta with 8OG-dC base pair at the primer terminus and flipped out dA Descriptor: CHLORIDE ION, DNA polymerase beta, Downstream Primer Strand, ... Authors: Batra, V.K, Wilson, S.H. Deposit date: 2020-03-06 Release date: 2020-07-22 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (1.998 Å) Cite: Structure of a DNA polymerase abortive complex with the 8OG:dA base pair at the primer terminus. Commun Biol, 3, 2020
4M3R	RB69 DNA polymerase ternary complex with dT/dG at position n-1 of primer/template duplex Descriptor: ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA polymerase, ... Authors: Xia, S, Konigsberg, W.H. Deposit date: 2013-08-06 Release date: 2014-02-12 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.07 Å) Cite: Mispairs with Watson-Crick base-pair geometry observed in ternary complexes of an RB69 DNA polymerase variant. Protein Sci., 23, 2014
4M45	RB69 DNA polymerase ternary complex with dG/dT at position n-5 of primer/template duplex Descriptor: ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA polymerase, ... Authors: Xia, S, Konigsberg, W.H. Deposit date: 2013-08-06 Release date: 2014-02-12 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (1.89 Å) Cite: Mispairs with Watson-Crick base-pair geometry observed in ternary complexes of an RB69 DNA polymerase variant. Protein Sci., 23, 2014
4M3U	RB69 DNA polymerase ternary complex with dT/dG at position n-3 of primer/template duplex Descriptor: ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA polymerase, ... Authors: Xia, S, Konigsberg, W.H. Deposit date: 2013-08-06 Release date: 2014-02-12 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.07 Å) Cite: Mispairs with Watson-Crick base-pair geometry observed in ternary complexes of an RB69 DNA polymerase variant. Protein Sci., 23, 2014
4M3T	RB69 DNA polymerase ternary complex with dT/dG at position n-2 of primer/template duplex Descriptor: ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA polymerase, ... Authors: Xia, S, Konigsberg, W.H. Deposit date: 2013-08-06 Release date: 2014-02-12 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (1.9 Å) Cite: Mispairs with Watson-Crick base-pair geometry observed in ternary complexes of an RB69 DNA polymerase variant. Protein Sci., 23, 2014
4M3Y	RB69 DNA polymerase ternary complex with dG/dT at position n-1 of primer/template duplex Descriptor: ADENOSINE-5'-TRIPHOSPHATE, CALCIUM ION, DNA polymerase, ... Authors: Xia, S, Konigsberg, W.H. Deposit date: 2013-08-06 Release date: 2014-02-12 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (1.86 Å) Cite: Mispairs with Watson-Crick base-pair geometry observed in ternary complexes of an RB69 DNA polymerase variant. Protein Sci., 23, 2014
7MLW	Burkholderia sp. TJI49 Guanidine-I riboswitch Descriptor: GUANIDINE, Guanidine-I riboswitch, MAGNESIUM ION, ... Authors: Trachman, R.J, Ferre-D'Amare, A.R. Deposit date: 2021-04-29 Release date: 2022-01-12 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (2.7 Å) Cite: An uncommon [K + (Mg 2+ ) 2 ] metal ion triad imparts stability and selectivity to the Guanidine-I riboswitch. Rna, 27, 2021
8BHW	Full-length bacterial polysaccharide co-polymerase WzzE from E. coli. C4 symmetry Descriptor: ECA polysaccharide chain length modulation protein Authors: Wiseman, B, Hogbom, M. Deposit date: 2022-11-01 Release date: 2023-07-26 Last modified: 2024-07-24 Method: ELECTRON MICROSCOPY (3.2 Å) Cite: Alternating L4 loop architecture of the bacterial polysaccharide co-polymerase WzzE. Commun Biol, 6, 2023
3CFR	Structure of the replicating complex of a POL Alpha family DNA Polymerase, ternary complex 2 Descriptor: CALCIUM ION, CHLORIDE ION, DNA (5'-D(*DGP*DCP*DGP*DGP*DAP*DCP*DTP*DGP*DCP*DTP*DTP*DAP*(DOC))-3'), ... Authors: Wang, J, Klimenko, D, Wang, M, Steitz, T.A, Konigsberg, W.H. Deposit date: 2008-03-04 Release date: 2009-03-10 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Insights into base selectivity from the structures of an RB69 DNA Polymerase triple mutant To be Published

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