PDB: 13413 resultsInfo pagesStatus searchChemie searchBIRD

---

3PVX	Binary complex of Aflatoxin B1 Adduct modified DNA (AFB1-FAPY) with DNA Polymerase IV Descriptor: CALCIUM ION, DNA (5'-D(*AP*TP*TP*(PVX)P*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3'), DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*C)-3'), ... Authors: Banerjee, S. Deposit date: 2010-12-07 Release date: 2011-08-10 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (3.03 Å) Cite: Bypass of Aflatoxin B(1) Adducts by the Sulfolobus solfataricus DNA Polymerase IV. J.Am.Chem.Soc., 133, 2011
5JCF	Crystal structure of chicken MDA5 with 5'p 10-mer dsRNA and ADP-Mg2+ at 2.6 A resolution (orthorhombic form). Descriptor: ADENOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, Melanoma differentiation associated protein-5, ... Authors: Cusack, S, Uchikawa, E. Deposit date: 2016-04-15 Release date: 2016-06-01 Last modified: 2024-01-10 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Structural Analysis of dsRNA Binding to Anti-viral Pattern Recognition Receptors LGP2 and MDA5. Mol.Cell, 62, 2016
1I3X	SOLUTION STRUCTURE OF THE A LOOP OF 23S RIBOSOMAL RNA Descriptor: 5'-R(*GP*GP*CP*UP*GP*GP*CP*UP*GP*UP*UP*CP*GP*CP*CP*AP*GP*CP*C)-3' Authors: Blanchard, S.C, Puglisi, J.D. Deposit date: 2001-02-17 Release date: 2001-04-04 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: Solution structure of the A loop of 23S ribosomal RNA. Proc.Natl.Acad.Sci.USA, 98, 2001
3FBN	Structure of the Mediator submodule Med7N/31 Descriptor: Mediator of RNA polymerase II transcription subunit 31, Mediator of RNA polymerase II transcription subunit 7 Authors: Koschubs, T, Seizl, M, Lariviere, L, Kurth, F, Baumli, S, Martin, D.E, Cramer, P. Deposit date: 2008-11-19 Release date: 2008-12-16 Last modified: 2023-11-01 Method: X-RAY DIFFRACTION (3.007 Å) Cite: Identification, structure, and functional requirement of the Mediator submodule Med7N/31 Embo J., 28, 2009
5DLG	Crystal Structure of Human DNA Polymerase Eta Inserting dGMPNPP Opposite O4-Methylhymidine Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]guanosine, DNA (5'-D(*AP*GP*CP*GP*TP*CP*AP*T)-3'), DNA (5'-D(*CP*AP*TP*(5DB)P*AP*TP*GP*AP*CP*GP*CP*T)-3'), ... Authors: Patra, A, OFlaherty, D.K, Egli, M. Deposit date: 2015-09-04 Release date: 2016-08-10 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (2.351 Å) Cite: Lesion Orientation ofO4-Alkylthymidine Influences Replication by Human DNA Polymeraseeta. Chem Sci, 7, 2016
5UI5	Crystal structure of Aquifex aeolicus sigmaN bound to promoter DNA Descriptor: DNA (30-MER), DNA (31-MER), RNA polymerase sigma factor RpoN Authors: Darst, S.A, Campbell, E.A, Rajashankar, K. Deposit date: 2017-01-12 Release date: 2017-02-22 Last modified: 2024-03-06 Method: X-RAY DIFFRACTION (3.4 Å) Cite: Crystal structure of Aquifex aeolicus sigma (N) bound to promoter DNA and the structure of sigma (N)-holoenzyme. Proc. Natl. Acad. Sci. U.S.A., 114, 2017
3C2K	DNA POLYMERASE BETA with a gapped DNA substrate and DUMPNPP with Manganese in the active site Descriptor: 2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE, CHLORIDE ION, DNA (5'-D(*DCP*DCP*DGP*DAP*DCP*DAP*DGP*DCP*DGP*DCP*DAP*DTP*DCP*DAP*DGP*DC)-3'), ... Authors: Batra, V.K, Beard, W.A, Shock, D.D, Pedersen, L.C, Wilson, S.H. Deposit date: 2008-01-25 Release date: 2008-05-20 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Structures of DNA polymerase beta with active-site mismatches suggest a transient abasic site intermediate during misincorporation. Mol.Cell, 30, 2008
4IH5	Hepatitis C Virus polymerase NS5B (BK) with fragment-based compounds Descriptor: 4-(2-phenylhydrazinyl)-1H-pyrazolo[3,4-d]pyrimidine, RNA-directed RNA polymerase Authors: Harris, S.F, Ghate, M. Deposit date: 2012-12-18 Release date: 2013-07-03 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (1.9 Å) Cite: De novo fragment design: a medicinal chemistry approach to fragment-based lead generation. J.Med.Chem., 56, 2013
4XIU	Binary complex structure of Klenow fragment of Taq DNA polymerase I707L mutant with DNA containing TTT overhang Descriptor: DNA polymerase I, thermostable, MAGNESIUM ION, ... Authors: Wu, E.Y. Deposit date: 2015-01-07 Release date: 2015-01-21 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (2.5 Å) Cite: A Conservative Isoleucine to Leucine Mutation Causes Major Rearrangements and Cold Sensitivity in KlenTaq1 DNA Polymerase. Biochemistry, 54, 2015
5MJV	Rebuild and re-refined model for Human Parechovirus 1 Descriptor: CAPSID SUBUNIT VP0, CAPSID SUBUNIT VP1, CAPSID SUBUNIT VP3, ... Authors: Shakeel, S, Dykeman, E.C, White, S.J, Ora, A, Cockburn, J.J.B, Butcher, S.J, Stockley, P.G, Twarock, R. Deposit date: 2016-12-01 Release date: 2017-01-11 Last modified: 2024-01-17 Method: X-RAY DIFFRACTION (3.09 Å) Cite: Genomic RNA folding mediates assembly of human parechovirus. Nat Commun, 8, 2017
4RUA	Crystal structure of Y-family DNA polymerase Dpo4 bypassing a MeFapy-dG adduct Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DNA polymerase IV, ... Authors: Patra, A, Banerjee, S, Stone, M.P, Egli, M. Deposit date: 2014-11-18 Release date: 2015-08-05 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (3.07 Å) Cite: Structural Basis for Error-Free Bypass of the 5-N-Methylformamidopyrimidine-dG Lesion by Human DNA Polymerase eta and Sulfolobus solfataricus P2 Polymerase IV. J.Am.Chem.Soc., 137, 2015
4XUS	Crystal structure of the pre-catalytic ternary complex of DNA polymerase lambda with a templating A and an incoming dTTP Descriptor: 2',3'-DIDEOXYCYTIDINE-5'-MONOPHOSPHATE, DNA (5'-D(*CP*AP*GP*TP*A)-3'), DNA (5'-D(*CP*GP*GP*CP*AP*GP*TP*AP*CP*TP*G)-3'), ... Authors: Burak, M.J, Guja, K.E, Garcia-Diaz, M. Deposit date: 2015-01-26 Release date: 2016-02-03 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.4 Å) Cite: Nucleotide binding interactions modulate dNTP selectivity and facilitate 8-oxo-dGTP incorporation by DNA polymerase lambda. Nucleic Acids Res., 43, 2015
4RU9	Crystal structure of human DNA polymerase eta inserting dCMPNPP opposite a MeFapy-dG adducted DNA template Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]cytidine, DNA polymerase eta, MAGNESIUM ION, ... Authors: Patra, A, Egli, M. Deposit date: 2014-11-18 Release date: 2015-08-05 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (2.65 Å) Cite: Structural Basis for Error-Free Bypass of the 5-N-Methylformamidopyrimidine-dG Lesion by Human DNA Polymerase eta and Sulfolobus solfataricus P2 Polymerase IV. J.Am.Chem.Soc., 137, 2015
8DVU	Cryo-EM structure of RIG-I bound to the internal sites of OHSLR30 (+ATP) Descriptor: ADENOSINE-5'-DIPHOSPHATE, Antiviral innate immune response receptor RIG-I, MAGNESIUM ION, ... Authors: Wang, W, Pyle, A.M. Deposit date: 2022-07-29 Release date: 2022-11-16 Last modified: 2024-06-12 Method: ELECTRON MICROSCOPY (2.9 Å) Cite: The RIG-I receptor adopts two different conformations for distinguishing host from viral RNA ligands. Mol.Cell, 82, 2022
5YTE	Large fragment of DNA Polymerase I from Thermus aquaticus in a closed ternary complex with with natural dT:dATP base pair Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, DNA (5'-D(*AP*AP*AP*TP*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: Zeng, H, Mondal, M, Song, R.Y, Zhang, J, Xia, B, Gao, Y.Q, Yi, C.Q. Deposit date: 2017-11-17 Release date: 2018-11-21 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (2.21 Å) Cite: Unnatural Cytosine Bases Recognized as Thymines by DNA Polymerases by the Formation of the Watson-Crick Geometry. Angew. Chem. Int. Ed. Engl., 58, 2019
7QHL	Crystal structure of Cyclin-dependent kinase 2/cyclin A in complex with 3,5,7-Substituted pyrazolo[4,3-d]pyrimidine inhibitor 24 Descriptor: 1,2-ETHANEDIOL, 5-(2-amino-1-ethyl)thio-3-cyclobutyl-7-[4-(pyrazol-1-yl)benzyl]amino-1(2)H-pyrazolo[4,3-d]pyrimidine, Cyclin-A2, ... Authors: Djukic, S, Skerlova, J, Rezacova, P. Deposit date: 2021-12-13 Release date: 2022-07-06 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (1.7 Å) Cite: 3,5,7-Substituted Pyrazolo[4,3- d ]Pyrimidine Inhibitors of Cyclin-Dependent Kinases and Cyclin K Degraders. J.Med.Chem., 65, 2022
5YTD	large fragment of DNA Polymerase I from Thermus aquaticus in a closed ternary complex with the natural base pair 5fC:dGTP Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA (5'-D(*AP*AP*AP*(5FC)P*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: Zeng, H, Mondal, M, Song, R.Y, Zhang, J, Xia, B, Gao, Y.Q, Yi, C.Q. Deposit date: 2017-11-17 Release date: 2018-11-21 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (2 Å) Cite: Unnatural Cytosine Bases Recognized as Thymines by DNA Polymerases by the Formation of the Watson-Crick Geometry. Angew. Chem. Int. Ed. Engl., 58, 2019
5YTC	Large fragment of DNA Polymerase I from Thermus aquaticus in a closed ternary complex with the unnatural base M-fC pair with dATP in the active site Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, DNA (5'-D(*AP*AP*AP*(92F)P*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)P*(DOC))-3'), ... Authors: Zeng, H, Mondal, M, Song, R.Y, Zhang, J, Xia, B, Yi, C.Q. Deposit date: 2017-11-17 Release date: 2018-11-21 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (2.28 Å) Cite: Unnatural Cytosine Bases Recognized as Thymines by DNA Polymerases by the Formation of the Watson-Crick Geometry. Angew. Chem. Int. Ed. Engl., 58, 2019
4RUC	Crystal structure of Y-family DNA polymerase Dpo4 extending from a MeFapy-dG:dC pair Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, DNA polymerase IV, ... Authors: Patra, A, Banerjee, S, Stone, M.P, Egli, M. Deposit date: 2014-11-18 Release date: 2015-08-05 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (2.9 Å) Cite: Structural Basis for Error-Free Bypass of the 5-N-Methylformamidopyrimidine-dG Lesion by Human DNA Polymerase eta and Sulfolobus solfataricus P2 Polymerase IV. J.Am.Chem.Soc., 137, 2015
6ZV3	TFIIS N-terminal domain (TND) from human MED26 Descriptor: Mediator of RNA polymerase II transcription subunit 26 Authors: Veverka, V. Deposit date: 2020-07-23 Release date: 2021-12-01 Last modified: 2024-06-19 Method: SOLUTION NMR Cite: A ubiquitous disordered protein interaction module orchestrates transcription elongation. Science, 374, 2021
3CW1	Crystal Structure of Human Spliceosomal U1 snRNP Descriptor: Small nuclear ribonucleoprotein E, Small nuclear ribonucleoprotein F, Small nuclear ribonucleoprotein G, ... Authors: Pomeranz Krummel, D.A, Oubridge, C, Leung, A.K, Li, J, Nagai, K. Deposit date: 2008-04-21 Release date: 2009-03-24 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (5.493 Å) Cite: Crystal structure of human spliceosomal U1 snRNP at 5.5 A resolution. Nature, 458, 2009
7K96	Human DNA polymerase beta ternary complex with templating cytosine and incoming deoxyguanosine diphosphate Descriptor: 1,2-ETHANEDIOL, 2'-DEOXYGUANOSINE-5'-DIPHOSPHATE, CALCIUM ION, ... Authors: Varela, F.A, Freudenthal, B.D. Deposit date: 2020-09-28 Release date: 2021-02-03 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (2.1 Å) Cite: Mechanism of Deoxyguanosine Diphosphate Insertion by Human DNA Polymerase beta. Biochemistry, 60, 2021
5DQG	Crystal Structure of Human DNA Polymerase Eta Inserting dAMPNPP Opposite O4-Ethylthymidine Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]adenosine, DNA (5'-D(*AP*GP*CP*GP*TP*CP*AP*T)-3'), DNA (5'-D(*CP*AP*TP*(5EJ)P*AP*TP*GP*AP*CP*GP*CP*T)-3'), ... Authors: Patra, A, OFlaherty, D.K, Egli, M. Deposit date: 2015-09-14 Release date: 2016-08-10 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (2.29 Å) Cite: Lesion Orientation ofO4-Alkylthymidine Influences Replication by Human DNA Polymeraseeta. Chem Sci, 7, 2016
5DQH	Crystal Structure of Human DNA Polymerase Eta Inserting dGMPNPP Opposite O4-Ethylthymidine Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]guanosine, DNA (5'-D(*AP*GP*CP*GP*TP*CP*AP*T)-3'), DNA (5'-D(*CP*AP*TP*(5EJ)P*AP*TP*GP*AP*CP*GP*CP*T)-3'), ... Authors: Patra, A, OFlaherty, D.K, Egli, M. Deposit date: 2015-09-14 Release date: 2016-08-10 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (1.99 Å) Cite: Lesion Orientation ofO4-Alkylthymidine Influences Replication by Human DNA Polymeraseeta. Chem Sci, 7, 2016
6HV9	S. cerevisiae CMG-Pol epsilon-DNA Descriptor: Cell division control protein 45, DNA (5'-D(*GP*CP*AP*GP*CP*CP*AP*CP*GP*CP*TP*GP*GP*CP*CP*GP*TP*TP*TP*TP*A)-3'), DNA (5'-D(P*TP*AP*AP*AP*AP*CP*GP*GP*CP*CP*AP*GP*CP*GP*TP*GP*GP*CP*TP*GP*C)-3'), ... Authors: Abid Ali, F, Purkiss, A.G, Cheung, A, Costa, A. Deposit date: 2018-10-10 Release date: 2018-12-12 Last modified: 2023-07-05 Method: ELECTRON MICROSCOPY (4.98 Å) Cite: Structure of DNA-CMG-Pol epsilon elucidates the roles of the non-catalytic polymerase modules in the eukaryotic replisome. Nat Commun, 9, 2018

<132133134135136137138139140141142143144145146147>