PDB: 10097 resultsInfo pagesStatus searchChemie searchBIRD

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6ZOK	SARS-CoV-2-Nsp1-40S complex, focused on body Descriptor: 18S ribosomal RNA, 40S ribosomal protein S11, 40S ribosomal protein S13, ... Authors: Schubert, K, Karousis, E.D, Jomaa, A, Scaiola, A, Echeverria, B, Gurzeler, L.-A, Leibundgut, M, Thiel, V, Muehlemann, O, Ban, N. Deposit date: 2020-07-07 Release date: 2020-07-29 Last modified: 2024-11-13 Method: ELECTRON MICROSCOPY (2.8 Å) Cite: SARS-CoV-2 Nsp1 binds the ribosomal mRNA channel to inhibit translation. Nat.Struct.Mol.Biol., 27, 2020
6H02	Crystal structure of human Mediator subunit MED23 Descriptor: LAMA nanobody NB106, Mediator of RNA polymerase II transcription subunit 23 Authors: Clantin, B, Monte, D, Villeret, V. Deposit date: 2018-07-06 Release date: 2018-08-29 Last modified: 2024-10-23 Method: X-RAY DIFFRACTION (2.8 Å) Cite: Crystal structure of human Mediator subunit MED23. Nat Commun, 9, 2018
1SMY	Structural basis for transcription regulation by alarmone ppGpp Descriptor: DNA-directed RNA polymerase alpha chain, DNA-directed RNA polymerase beta chain, DNA-directed RNA polymerase beta' chain, ... Authors: Artsimovitch, I, Patlan, V, Sekine, S, Vassylyeva, M.N, Hosaka, T, Ochi, K, Yokoyama, S, Vassylyev, D.G, RIKEN Structural Genomics/Proteomics Initiative (RSGI) Deposit date: 2004-03-10 Release date: 2004-05-18 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2.7 Å) Cite: Structural basis for transcription regulation by alarmone ppGpp Cell(Cambridge,Mass.), 117, 2004
5T2T	Crystal structure of Lymphocytic choriomeningitis mammarenavirus endonuclease bound to compound L742001 Descriptor: (2Z)-4-[1-benzyl-4-(4-chlorobenzyl)piperidin-4-yl]-2-hydroxy-4-oxobut-2-enoic acid, CHLORIDE ION, GLYCEROL, ... Authors: Saez-Ayala, M, Yekwa, E.L, Canard, B, Alvarez, K, Ferron, F. Deposit date: 2016-08-24 Release date: 2017-09-13 Last modified: 2024-01-17 Method: X-RAY DIFFRACTION (1.967 Å) Cite: Crystal structures ofLymphocytic choriomeningitis virusendonuclease domain complexed with diketo-acid ligands. IUCrJ, 5, 2018
6ZOL	SARS-CoV-2-Nsp1-40S complex, focused on head Descriptor: 18S ribosomal RNA, 40S ribosomal protein S10, 40S ribosomal protein S12, ... Authors: Schubert, K, Karousis, E.D, Jomaa, A, Scaiola, A, Echeverria, B, Gurzeler, L.-A, Leibundgut, M.L, Thiel, V, Muehlemann, O, Ban, N. Deposit date: 2020-07-07 Release date: 2020-07-22 Last modified: 2024-05-01 Method: ELECTRON MICROSCOPY (2.8 Å) Cite: SARS-CoV-2 Nsp1 binds the ribosomal mRNA channel to inhibit translation. Nat.Struct.Mol.Biol., 27, 2020
7AAV	Human pre-Bact-2 spliceosome core structure Descriptor: 116 kDa U5 small nuclear ribonucleoprotein component, Cell division cycle 5-like protein, D-chiro inositol hexakisphosphate, ... Authors: Townsend, C, Kastner, B, Leelaram, M.N, Bertram, K, Stark, H, Luehrmann, R. Deposit date: 2020-09-04 Release date: 2020-12-09 Last modified: 2020-12-30 Method: ELECTRON MICROSCOPY (4.2 Å) Cite: Mechanism of protein-guided folding of the active site U2/U6 RNA during spliceosome activation. Science, 370, 2020
7OMG	Crystal structure of KOD DNA Polymerase in a ternary complex with an Uracil containing template Descriptor: 1,2-ETHANEDIOL, 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, CALCIUM ION, ... Authors: Betz, K, Kropp, H.M, Diederichs, K, Marx, A. Deposit date: 2021-05-22 Release date: 2021-10-13 Last modified: 2024-11-06 Method: X-RAY DIFFRACTION (2.1 Å) Cite: Structural Basis for The Recognition of Deaminated Nucleobases by An Archaeal DNA Polymerase. Chembiochem, 22, 2021
7OMB	Crystal structure of KOD DNA Polymerase in a ternary complex with a p/t duplex containing an extended 5' single stranded template overhang Descriptor: 1,2-ETHANEDIOL, 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE, DNA polymerase, ... Authors: Betz, K, Kropp, H.M, Diederichs, K, Marx, A. Deposit date: 2021-05-21 Release date: 2021-10-13 Last modified: 2024-01-31 Method: X-RAY DIFFRACTION (2.01 Å) Cite: Structural Basis for The Recognition of Deaminated Nucleobases by An Archaeal DNA Polymerase. Chembiochem, 22, 2021
4JK1	X-ray crystal structure of Escherichia coli sigma70 holoenzyme in complex with Guanosine tetraphosphate (ppGpp) Descriptor: Escherichia coli RNA polymerase alpha subunit, Escherichia coli RNA polymerase beta subunit, Escherichia coli RNA polymerase beta' subunit, ... Authors: Murakami, K.S. Deposit date: 2013-03-09 Release date: 2013-04-10 Last modified: 2024-02-28 Method: X-RAY DIFFRACTION (3.9 Å) Cite: Differential regulation by ppGpp versus pppGpp in Escherichia coli. Nucleic Acids Res., 41, 2013
4JK2	X-ray crystal structure of Escherichia coli sigma70 holoenzyme in complex with guanosine pentaphosphate (pppGpp) Descriptor: Escherichia coli RNA polymerase alpha subunit, Escherichia coli RNA polymerase beta subunit, Escherichia coli RNA polymerase beta' subunit, ... Authors: Murakami, K.S. Deposit date: 2013-03-09 Release date: 2013-04-17 Last modified: 2023-09-20 Method: X-RAY DIFFRACTION (4.201 Å) Cite: Differential regulation by ppGpp versus pppGpp in Escherichia coli. Nucleic Acids Res., 41, 2013
4G7Z	Crystal structure of Thermus thermophilus transcription initiation complex containing 5-BrU at template-strand position +1 Descriptor: 5'-D(*CP*CP*TP*GP*CP*AP*TP*CP*CP*GP*TP*GP*AP*GP*(BRU)P*CP*GP*AP*GP*GP*G)-3', 5'-D(*TP*AP*TP*AP*AP*TP*GP*GP*GP*AP*GP*CP*TP*GP*TP*CP*AP*CP*GP*GP*AP*TP*GP*CP*AP*GP*G)-3', DNA-directed RNA polymerase subunit alpha, ... Authors: Zhang, Y, Ebright, R.H. Deposit date: 2012-07-20 Release date: 2012-10-31 Last modified: 2023-09-13 Method: X-RAY DIFFRACTION (3.815 Å) Cite: Structural basis of transcription initiation. Science, 338, 2012
8D6J	Human Ago2 bound to miR122(21nt) with PIWI loop swapped to AtAgo10 sequence Descriptor: MAGNESIUM ION, Protein argonaute-2, RNA (5'-R(P*UP*GP*GP*AP*GP*UP*GP*UP*GP*AP*CP*AP*AP*UP*GP*GP*UP*GP*UP*UP*U)-3') Authors: Xiao, Y, MacRae, I. Deposit date: 2022-06-06 Release date: 2023-05-03 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2.5 Å) Cite: A tiny loop in the Argonaute PIWI domain tunes small RNA seed strength. Embo Rep., 24, 2023
8KG6	Yeast replisome in state I Descriptor: ADENOSINE-5'-DIPHOSPHATE, Cell division control protein 45, Chromosome segregation in meiosis protein 3, ... Authors: Dang, S, Zhai, Y, Feng, J, Yu, D, Xu, Z. Deposit date: 2023-08-17 Release date: 2023-12-06 Method: ELECTRON MICROSCOPY (3.07 Å) Cite: Synergism between CMG helicase and leading strand DNA polymerase at replication fork. Nat Commun, 14, 2023
7EH1	Thermus thermophilus transcription initiation complex containing a template-strand purine at position TSS-2, GpG RNA primer, and CMPcPP Descriptor: 1,4-BUTANEDIOL, 5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]methyl}phosphoryl]cytidine, DNA (27-MER), ... Authors: Li, L, Zhang, Y. Deposit date: 2021-03-27 Release date: 2021-07-14 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (2.9 Å) Cite: Promoter-sequence determinants and structural basis of primer-dependent transcription initiation in Escherichia coli . Proc.Natl.Acad.Sci.USA, 118, 2021
7EH2	Thermus thermophilus transcription initiation complex containing a template-strand pyrimidine at position TSS-2 and GpG RNA primer Descriptor: DNA (27-MER), DNA (5'-D(*CP*C*TP*GP*CP*AP*TP*CP*CP*GP*TP*GP*AP*GP*CP*CP*TP*AP*G)-3'), DNA-directed RNA polymerase subunit alpha, ... Authors: Li, L, Zhang, Y. Deposit date: 2021-03-27 Release date: 2021-07-14 Last modified: 2023-11-29 Method: X-RAY DIFFRACTION (3.34 Å) Cite: Promoter-sequence determinants and structural basis of primer-dependent transcription initiation in Escherichia coli . Proc.Natl.Acad.Sci.USA, 118, 2021
5UBP	TREX2 M-region Descriptor: 26S proteasome complex subunit SEM1, Leucine permease transcriptional regulator, Nuclear mRNA export protein THP1 Authors: Stewart, M, Gordon, J. Deposit date: 2016-12-21 Release date: 2017-04-05 Last modified: 2024-11-06 Method: X-RAY DIFFRACTION (2.3 Å) Cite: Structure of the Sac3 RNA-binding M-region in the Saccharomyces cerevisiae TREX-2 complex. Nucleic Acids Res., 45, 2017
8KG9	Yeast replisome in state III Descriptor: ADENOSINE-5'-DIPHOSPHATE, Cell division control protein 45, DNA (61-mer), ... Authors: Dang, S, Zhai, Y, Feng, J, Yu, D, Xu, Z. Deposit date: 2023-08-17 Release date: 2023-12-06 Method: ELECTRON MICROSCOPY (4.52 Å) Cite: Synergism between CMG helicase and leading strand DNA polymerase at replication fork. Nat Commun, 14, 2023
4XJN	Structure of the parainfluenza virus 5 nucleocapsid-RNA complex: an insight into paramyxovirus polymerase activity Descriptor: LEAD (II) ION, Nucleocapsid, RNA (78-MER) Authors: Alayyoubi, M, Leser, G.P, Kors, C.A, Lamb, R.A. Deposit date: 2015-01-08 Release date: 2015-03-18 Last modified: 2024-11-06 Method: X-RAY DIFFRACTION (3.11 Å) Cite: Structure of the paramyxovirus parainfluenza virus 5 nucleoprotein-RNA complex. Proc.Natl.Acad.Sci.USA, 112, 2015
8E86	Human DNA polymerase eta-DNA-rC-ended primer-dGMPNPP ternary mismatch complex with Mn2+ Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]guanosine, DNA (5'-D(*CP*AP*TP*TP*GP*TP*GP*AP*CP*GP*CP*T)-3'), DNA polymerase eta, ... Authors: Chang, C, Gao, Y. Deposit date: 2022-08-25 Release date: 2023-02-01 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (1.78 Å) Cite: Primer terminal ribonucleotide alters the active site dynamics of DNA polymerase eta and reduces DNA synthesis fidelity. J.Biol.Chem., 299, 2023
8E8G	Human DNA polymerase eta-DNA-rU-ended primer ternary mismatch complex:reaction with 10 mM Mn2+ for 180s Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DIPHOSPHATE, DNA (5'-D(*CP*AP*TP*TP*AP*TP*GP*AP*CP*GP*CP*T)-3'), ... Authors: Chang, C, Gao, Y. Deposit date: 2022-08-25 Release date: 2023-02-01 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2.13 Å) Cite: Primer terminal ribonucleotide alters the active site dynamics of DNA polymerase eta and reduces DNA synthesis fidelity. J.Biol.Chem., 299, 2023
8E85	Human DNA polymerase eta-DNA-rG-ended primer-dGMPNPP ternary mismatch complex with Mn2+ Descriptor: 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]guanosine, DNA (5'-D(*CP*AP*TP*TP*CP*TP*GP*AP*CP*GP*CP*T)-3'), DNA polymerase eta, ... Authors: Chang, C, Gao, Y. Deposit date: 2022-08-25 Release date: 2023-02-01 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (1.72 Å) Cite: Primer terminal ribonucleotide alters the active site dynamics of DNA polymerase eta and reduces DNA synthesis fidelity. J.Biol.Chem., 299, 2023
8E8F	Human DNA polymerase eta-DNA-rU-ended primer ternary mismatch complex:reaction with 10 mM Mn2+ for 120s Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DIPHOSPHATE, DNA (5'-D(*CP*AP*TP*TP*AP*TP*GP*AP*CP*GP*CP*T)-3'), ... Authors: Chang, C, Gao, Y. Deposit date: 2022-08-25 Release date: 2023-02-01 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2.14 Å) Cite: Primer terminal ribonucleotide alters the active site dynamics of DNA polymerase eta and reduces DNA synthesis fidelity. J.Biol.Chem., 299, 2023
8E8E	Human DNA polymerase eta-DNA-rU-ended primer ternary mismatch complex:reaction with 10 mM Mn2+ for 90s Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DIPHOSPHATE, DNA (5'-D(*CP*AP*TP*TP*AP*TP*GP*AP*CP*GP*CP*T)-3'), ... Authors: Chang, C, Gao, Y. Deposit date: 2022-08-25 Release date: 2023-02-01 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2.05 Å) Cite: Primer terminal ribonucleotide alters the active site dynamics of DNA polymerase eta and reduces DNA synthesis fidelity. J.Biol.Chem., 299, 2023
8E8D	Human DNA polymerase eta-DNA-rU-ended primer ternary mismatch complex:reaction with 10 mM Mn2+ for 60s Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*AP*TP*TP*AP*TP*GP*AP*CP*GP*CP*T)-3'), DNA polymerase eta, ... Authors: Chang, C, Gao, Y. Deposit date: 2022-08-25 Release date: 2023-02-01 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2.09 Å) Cite: Primer terminal ribonucleotide alters the active site dynamics of DNA polymerase eta and reduces DNA synthesis fidelity. J.Biol.Chem., 299, 2023
8E8C	Human DNA polymerase eta-DNA-rU-ended primer ternary mismatch complex:reaction with 10 mM Mn2+ for 30s Descriptor: 2'-DEOXYGUANOSINE-5'-TRIPHOSPHATE, DNA (5'-D(*CP*AP*TP*TP*AP*TP*GP*AP*CP*GP*CP*T)-3'), DNA polymerase eta, ... Authors: Chang, C, Gao, Y. Deposit date: 2022-08-25 Release date: 2023-02-01 Last modified: 2023-10-25 Method: X-RAY DIFFRACTION (2.25 Å) Cite: Primer terminal ribonucleotide alters the active site dynamics of DNA polymerase eta and reduces DNA synthesis fidelity. J.Biol.Chem., 299, 2023

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