PDB: 13252 resultsInfo pagesStatus searchChemie searchBIRD

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3C2M	Ternary complex of DNA POLYMERASE BETA with a G:dAPCPP mismatch in the active site Descriptor: 1,2-ETHANEDIOL, 2'-deoxy-5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]adenosine, DNA (5'-D(*DCP*DCP*DGP*DAP*DCP*DGP*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 (2.15 Å) Cite: Structures of DNA polymerase beta with active-site mismatches suggest a transient abasic site intermediate during misincorporation. Mol.Cell, 30, 2008
5HZD	RNA Editing TUTase 1 from Trypanosoma brucei Descriptor: 3' terminal uridylyl transferase, CHLORIDE ION, SULFATE ION, ... Authors: Thore, S, Rajappa, L.T. Deposit date: 2016-02-02 Release date: 2016-10-26 Last modified: 2024-01-10 Method: X-RAY DIFFRACTION (1.6 Å) Cite: RNA Editing TUTase 1: structural foundation of substrate recognition, complex interactions and drug targeting. Nucleic Acids Res., 44, 2016
3PW0	Ternary complex of Aflatoxin B1 Adduct modified DNA (AFB1-FAPY) with DNA Polymerase IV and incoming dATP Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, 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 (2.91 Å) Cite: Bypass of Aflatoxin B(1) Adducts by the Sulfolobus solfataricus DNA Polymerase IV. J.Am.Chem.Soc., 133, 2011
3PW7	Ternary complex of Aflatoxin B1 Adduct modified DNA (AFB1-N7-Gua) with DNA Polymerase IV and incoming dCTP Descriptor: 2'-DEOXYCYTIDINE-5'-TRIPHOSPHATE, 8,9-DIHYDRO-9-HYDROXY-AFLATOXIN B1, CALCIUM ION, ... Authors: Banerjee, S. Deposit date: 2010-12-07 Release date: 2011-08-10 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (2.9 Å) Cite: Bypass of Aflatoxin B(1) Adducts by the Sulfolobus solfataricus DNA Polymerase IV. J.Am.Chem.Soc., 133, 2011
3PW4	Ternary complex of Aflatoxin B1 Adduct modified DNA (AFB1-N7-Gua) with DNA Polymerase IV and incoming dATP Descriptor: 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, 8,9-DIHYDRO-9-HYDROXY-AFLATOXIN B1, CALCIUM ION, ... Authors: Banerjee, S. Deposit date: 2010-12-07 Release date: 2011-08-10 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (2.9 Å) Cite: Bypass of Aflatoxin B(1) Adducts by the Sulfolobus solfataricus DNA Polymerase IV. J.Am.Chem.Soc., 133, 2011
3PW5	Ternary complex of Aflatoxin B1 Adduct modified DNA (AFB1-N7-Gua) with DNA Polymerase IV and incoming dTTP Descriptor: 8,9-DIHYDRO-9-HYDROXY-AFLATOXIN B1, CALCIUM ION, 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 Å) Cite: Bypass of Aflatoxin B(1) Adducts by the Sulfolobus solfataricus DNA Polymerase IV. J.Am.Chem.Soc., 133, 2011
3PW2	Ternary complex of Aflatoxin B1 Adduct modified DNA (AFB1-FAPY) with DNA Polymerase IV and incoming dTTP Descriptor: CALCIUM ION, DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*C)-3'), DNA (5'-D(*TP*TP*(PVX)P*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3'), ... Authors: Banerjee, S. Deposit date: 2010-12-07 Release date: 2011-08-10 Last modified: 2024-02-21 Method: X-RAY DIFFRACTION (2.74 Å) Cite: Bypass of Aflatoxin B(1) Adducts by the Sulfolobus solfataricus DNA Polymerase IV. J.Am.Chem.Soc., 133, 2011
7KQN	Ternary complex of TERT (telomerase reverse transcriptase) with RNA template, DNA primer, an incoming dGTP and a downstream hybrid duplex Descriptor: 1,2-ETHANEDIOL, 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, ... Authors: Choi, W.S, Weng, P.J, Yang, W. Deposit date: 2020-11-17 Release date: 2022-03-23 Last modified: 2023-10-18 Method: X-RAY DIFFRACTION (2.02 Å) Cite: Flexibility of telomerase in binding the RNA template and DNA telomeric repeat. Proc.Natl.Acad.Sci.USA, 119, 2022
3C2L	Ternary complex of DNA POLYMERASE BETA with a C:DAPCPP mismatch in the active site Descriptor: 2'-deoxy-5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]adenosine, DNA (5'-D(*DCP*DCP*DGP*DAP*DCP*DCP*DGP*DCP*DGP*DCP*DAP*DTP*DCP*DAP*DGP*DC)-3'), DNA (5'-D(*DGP*DCP*DTP*DGP*DAP*DTP*DGP*DCP*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 (2.6 Å) Cite: Structures of DNA polymerase beta with active-site mismatches suggest a transient abasic site intermediate during misincorporation. Mol.Cell, 30, 2008
5I49	RNA Editing TUTase 1 from Trypanosoma brucei in complex with UTP analog UMPNPP Descriptor: 3' terminal uridylyl transferase, 5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]uridine, MAGNESIUM ION, ... Authors: Thore, S, Rajappa, L.T. Deposit date: 2016-02-11 Release date: 2016-11-09 Last modified: 2024-01-10 Method: X-RAY DIFFRACTION (1.8 Å) Cite: RNA Editing TUTase 1: structural foundation of substrate recognition, complex interactions and drug targeting. Nucleic Acids Res., 44, 2016
5IDO	RNA Editing TUTase 1 from Trypanosoma brucei in complex with UTP Descriptor: 3' terminal uridylyl transferase, MAGNESIUM ION, URIDINE 5'-TRIPHOSPHATE, ... Authors: Thore, S, Rajappa, L.T. Deposit date: 2016-02-24 Release date: 2016-10-26 Last modified: 2024-01-10 Method: X-RAY DIFFRACTION (2.2 Å) Cite: RNA Editing TUTase 1: structural foundation of substrate recognition, complex interactions and drug targeting. Nucleic Acids Res., 44, 2016
3MBY	Ternary complex of DNA Polymerase BETA with template base A and 8oxodGTP in the active site with a dideoxy terminated primer Descriptor: 8-OXO-2'-DEOXYGUANOSINE-5'-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, Beard, W.A, Hou, E.W, Pedersen, L.C, Prasad, R, Wilson, S.H. Deposit date: 2010-03-26 Release date: 2010-06-09 Last modified: 2023-09-06 Method: X-RAY DIFFRACTION (2 Å) Cite: Mutagenic conformation of 8-oxo-7,8-dihydro-2'-dGTP in the confines of a DNA polymerase active site. Nat.Struct.Mol.Biol., 17, 2010
8B9K	Cryo-EM structure of MLE in complex with ADP:AlF4 and SL7modUUC RNA Descriptor: ADENOSINE-5'-DIPHOSPHATE, Dosage compensation regulator, SL7modUUC, ... Authors: Jagtap, P.K.A, Hennig, J. Deposit date: 2022-10-06 Release date: 2023-10-18 Last modified: 2024-05-01 Method: ELECTRON MICROSCOPY (4.04 Å) Cite: Structural basis of RNA-induced autoregulation of the DExH-type RNA helicase maleless. Mol.Cell, 83, 2023
7R2V	Structure of nsp14 from SARS-CoV-2 in complex with SAH Descriptor: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, DI(HYDROXYETHYL)ETHER, Proofreading exoribonuclease nsp14, ... Authors: Czarna, A, Plewka, J, Kresik, L, Matsuda, A, Abdulkarim, K, Robinson, C, OByrne, S, Cunningham, F, Georgiou, I, Pachota, M, Popowicz, G.M, Wyatt, P.G, Dubin, G, Pyrc, K. Deposit date: 2022-02-06 Release date: 2022-03-09 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (2.53 Å) Cite: Refolding of lid subdomain of SARS-CoV-2 nsp14 upon nsp10 interaction releases exonuclease activity. Structure, 30, 2022
6VAR	61 nt human Hepatitis B virus epsilon pre-genomic RNA Descriptor: RNA (61-MER) Authors: LeBlanc, R.M, Kasprzak, W.K, Longhini, A.P, Abulwerdi, F, Ginocchio, S, Shields, B, Nyman, J, Svirydava, M, Del Vecchio, C, Ivanic, J, Schneekloth, J.S, Dayie, T.K, Shapiro, B.A, Le Grice, S.F.J. Deposit date: 2019-12-17 Release date: 2020-12-30 Last modified: 2024-05-15 Method: SOLUTION NMR, SOLUTION SCATTERING Cite: Structural insights of the conserved "priming loop" of hepatitis B virus pre-genomic RNA. J.Biomol.Struct.Dyn., 2021
3WFO	tRNA processing enzyme (apo form 1) Descriptor: Poly A polymerase, SULFATE ION Authors: Yamashita, S, Takeshita, D, Tomita, K. Deposit date: 2013-07-23 Release date: 2014-01-01 Last modified: 2024-03-20 Method: X-RAY DIFFRACTION (3.4 Å) Cite: Translocation and rotation of tRNA during template-independent RNA polymerization by tRNA nucleotidyltransferase Structure, 22, 2014
2B6G	RNA recognition by the Vts1 SAM domain Descriptor: 5'-R(*GP*GP*AP*GP*GP*CP*UP*CP*UP*GP*GP*CP*AP*GP*CP*UP*UP*UP*C)-3', Vts1p Authors: Donaldson, L.W, Johnson, P.E. Deposit date: 2005-10-01 Release date: 2006-01-24 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: RNA recognition by the Vts1p SAM domain Nat.Struct.Mol.Biol., 13, 2006
2FLL	Ternary complex of human DNA polymerase iota with DNA and dTTP Descriptor: DNA polymerase iota, DNA primer strand, DNA template strand, ... Authors: Nair, D.T, Johnson, R.E, Prakash, L, Prakash, S, Aggarwal, A.K. Deposit date: 2006-01-06 Release date: 2006-12-12 Last modified: 2023-08-30 Method: X-RAY DIFFRACTION (2.6 Å) Cite: An incoming nucleotide imposes an anti to syn conformational change on the templating purine in the human DNA polymerase-iota active site. Structure, 14, 2006
3WFP	tRNA processing enzyme (apo form 2) Descriptor: Poly A polymerase, SULFATE ION Authors: Yamashita, S, Takeshita, D, Tomita, K. Deposit date: 2013-07-23 Release date: 2014-01-01 Last modified: 2023-11-08 Method: X-RAY DIFFRACTION (4.005 Å) Cite: Translocation and rotation of tRNA during template-independent RNA polymerization by tRNA nucleotidyltransferase Structure, 22, 2014
2L41	Nab3 RRM - UCUU complex Descriptor: RNA (5'-R(P*UP*CP*UP*U)-3'), RRM domain from Nuclear polyadenylated RNA-binding protein 3 Authors: Stefl, R, Pergoli, R, Hobor, F, Kubicek, K, Zimmermann, M, Pasulka, J, Hofr, C. Deposit date: 2010-09-28 Release date: 2010-11-17 Last modified: 2024-05-01 Method: SOLUTION NMR Cite: Recognition of transcription termination signal by the nuclear polyadenylated RNA-binding (NAB) 3 protein J.Biol.Chem., 286, 2011
1R4G	Solution structure of the Sendai virus protein X C-subdomain Descriptor: RNA polymerase alpha subunit Authors: Blanchard, L, Tarbouriech, N, Blackledge, M, Timmins, P, Burmeister, W.P, Ruigrok, R.W, Marion, D. Deposit date: 2003-10-06 Release date: 2004-03-09 Last modified: 2024-05-22 Method: SOLUTION NMR Cite: Structure and dynamics of the nucleocapsid-binding domain of the Sendai virus phosphoprotein in solution Virology, 319, 2004
6NKZ	Ternary complex crystal structure of K289M variant of DNA polymerase Beta with "hot-spot sequence" with beta-gamma methylene dGTP Descriptor: 2'-DEOXY-5'-O-(HYDROXY{[HYDROXY(PHOSPHONOMETHYL)PHOSPHORYL]OXY}PHOSPHORYL)GUANOSINE, DNA (5'-D(*CP*CP*GP*AP*AP*CP*AP*AP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*TP*(2DT))-3'), ... Authors: Batra, V.K, Wilson, S.H. Deposit date: 2019-01-07 Release date: 2020-01-08 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (2.01 Å) Cite: Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography. Biochemistry, 59, 2020
6NKT	Ternary complex crystal structure of K289M variant of DNA polymerase Beta with beta-gamma difluoro analogue of dGTP Descriptor: 2'-DEOXY-5'-O-[({[DIFLUORO(PHOSPHONO)METHYL](HYDROXY)PHOSPHORYL}OXY)(HYDROXY)PHOSPHORYL]GUANOSINE, DNA (5'-D(*CP*CP*GP*AP*CP*CP*GP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3'), DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*(DOC))-3'), ... Authors: Batra, V.K, Wilson, S.H. Deposit date: 2019-01-07 Release date: 2020-01-08 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (2.6 Å) Cite: Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography. Biochemistry, 59, 2020
6NKY	Ternary complex crystal structure of K289M variant of DNA polymerase Beta with "hot-spot sequence" with beta-gamma CHF analogue of dGTP Descriptor: 2'-DEOXY-5'-O-[(R)-{[(R)-[(R)-FLUORO(PHOSPHONO)METHYL](HYDROXY)PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]GUANOSINE, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*AP*CP*AP*AP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ... Authors: Batra, V.K, Wilson, S.H. Deposit date: 2019-01-07 Release date: 2020-01-08 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (2.094 Å) Cite: Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography. Biochemistry, 59, 2020
6NKV	Ternary complex crystal structure of DNA polymerase Beta with "hot-spot sequence" with beta-gamma CHF analogue of dGTP Descriptor: 2'-DEOXY-5'-O-[(R)-{[(R)-[(R)-FLUORO(PHOSPHONO)METHYL](HYDROXY)PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]GUANOSINE, CHLORIDE ION, DNA (5'-D(*CP*CP*GP*AP*AP*CP*AP*AP*GP*CP*AP*TP*CP*AP*GP*C)-3'), ... Authors: Batra, V.K, Wilson, S.H. Deposit date: 2019-01-07 Release date: 2020-01-08 Last modified: 2024-03-13 Method: X-RAY DIFFRACTION (1.85 Å) Cite: Revealing an Internal Stabilization Deficiency in the DNA Polymerase beta K289M Cancer Variant through the Combined Use of Chemical Biology and X-ray Crystallography. Biochemistry, 59, 2020

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