PDB: 79225 resultsInfo pagesStatus searchChemie searchBIRD

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6GQB	Cryo-EM reconstruction of yeast 80S ribosome in complex with mRNA, tRNA and eEF2 (GDP+AlF4/sordarin) Descriptor: 18S ribosomal RNA, 40S ribosomal protein S0-A, 40S ribosomal protein S1-A, ... Authors: Pellegrino, S, Yusupov, M, Yusupova, G, Hashem, Y. Deposit date: 2018-06-07 Release date: 2018-07-11 Last modified: 2025-07-09 Method: ELECTRON MICROSCOPY (3.9 Å) Cite: Structural Insights into the Role of Diphthamide on Elongation Factor 2 in mRNA Reading-Frame Maintenance. J. Mol. Biol., 430, 2018
8IAZ	Cryo-EM structure of the ISFba1 TnpB-reRNA-dsDNA complex Descriptor: DNA (5'-D(P*AP*CP*AP*TP*GP*GP*AP*CP*CP*AP*TP*CP*AP*GP*CP*TP*CP*CP*TP*AP*AP*TP*GP*G)-3'), DNA (5'-D(P*CP*CP*AP*TP*TP*AP*GP*GP*AP*GP*CP*TP*GP*AP*TP*G)-3'), RNA (207-MER), ... Authors: Yin, M, Zhou, F, Zhu, Y, Huang, Z. Deposit date: 2023-02-09 Release date: 2024-04-17 Last modified: 2024-05-15 Method: ELECTRON MICROSCOPY (3 Å) Cite: Discovery and structural mechanism of DNA endonucleases guided by RAGATH-18-derived RNAs. Cell Res., 34, 2024
5JX4	Crystal structure of E36-G37del mutant of the Bacillus caldolyticus cold shock protein. Descriptor: Cold shock protein CspB, SULFATE ION Authors: Carvajal, A, Castro-Fernandez, V, Cabrejos, D, Fuentealba, M, Pereira, H.M, Vallejos, G, Cabrera, R, Garratt, R.C, Komives, E.A, Ramirez-Sarmiento, C.A, Babul, J. Deposit date: 2016-05-12 Release date: 2017-05-10 Last modified: 2023-09-27 Method: X-RAY DIFFRACTION (1.8 Å) Cite: Unusual dimerization of a BcCsp mutant leads to reduced conformational dynamics. FEBS J., 284, 2017
4V4W	Structure of a SecM-stalled E. coli ribosome complex obtained by fitting atomic models for RNA and protein components into cryo-EM map EMD-1143 Descriptor: 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal subunit protein S10, ... Authors: Mitra, K, Frank, J. Deposit date: 2006-05-09 Release date: 2014-07-09 Last modified: 2024-02-28 Method: ELECTRON MICROSCOPY (15 Å) Cite: Elongation arrest by SecM via a cascade of ribosomal RNA rearrangements Mol.Cell, 22, 2006
4V4V	Structure of a pre-translocational E. coli ribosome obtained by fitting atomic models for RNA and protein components into cryo-EM map EMD-1056 Descriptor: 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal subunit protein S10, ... Authors: Mitra, K, Frank, J. Deposit date: 2006-05-09 Release date: 2014-07-09 Last modified: 2024-02-28 Method: ELECTRON MICROSCOPY (15 Å) Cite: Elongation arrest by SecM via a cascade of ribosomal RNA rearrangements Mol.Cell, 22, 2006
8G7Q	Structure of the Escherichia coli 70S ribosome in complex with EF-Tu and Ile-tRNAIle(LAU) bound to the near-cognate AUG codon (Structure II) Descriptor: 16S Ribosomal RNA, 23S Ribosomal RNA, 30S ribosomal protein S10, ... Authors: Rybak, M.Y, Gagnon, M.G. Deposit date: 2023-02-16 Release date: 2024-03-06 Last modified: 2025-03-19 Method: ELECTRON MICROSCOPY (3.1 Å) Cite: Structures of the ribosome bound to EF-Tu-isoleucine tRNA elucidate the mechanism of AUG avoidance. Nat.Struct.Mol.Biol., 31, 2024
4V6T	Structure of the bacterial ribosome complexed by tmRNA-SmpB and EF-G during translocation and MLD-loading Descriptor: 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal protein S10, ... Authors: Ramrath, D.J.F, Yamamoto, H, Rother, K, Wittek, D, Pech, M, Mielke, T, Loerke, J, Scheerer, P, Ivanov, P, Teraoka, Y, Shpanchenko, O, Nierhaus, K.H, Spahn, C.M.T. Deposit date: 2012-01-27 Release date: 2014-07-09 Last modified: 2024-02-28 Method: ELECTRON MICROSCOPY (8.3 Å) Cite: The complex of tmRNA-SmpB and EF-G on translocating ribosomes. Nature, 485, 2012
8G7P	Structure of the Escherichia coli 70S ribosome in complex with EF-Tu and Ile-tRNAIle(LAU) bound to the cognate AUA codon (Structure I) Descriptor: 16S Ribosomal RNA, 23S Ribosomal RNA, 30S ribosomal protein S10, ... Authors: Rybak, M.Y, Gagnon, M.G. Deposit date: 2023-02-16 Release date: 2024-03-06 Last modified: 2025-03-19 Method: ELECTRON MICROSCOPY (2.9 Å) Cite: Structures of the ribosome bound to EF-Tu-isoleucine tRNA elucidate the mechanism of AUG avoidance. Nat.Struct.Mol.Biol., 31, 2024
6P5I	Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 1) Descriptor: 18S rRNA, 28S rRNA, 5.8S rRNA, ... Authors: Acosta-Reyes, F.J, Neupane, R, Frank, J, Fernandez, I.S. Deposit date: 2019-05-30 Release date: 2019-09-18 Last modified: 2024-11-13 Method: ELECTRON MICROSCOPY (3.1 Å) Cite: The Israeli acute paralysis virus IRES captures host ribosomes by mimicking a ribosomal state with hybrid tRNAs. Embo J., 38, 2019
6P5N	Structure of a mammalian 80S ribosome in complex with a single translocated Israeli Acute Paralysis Virus IRES and eRF1 Descriptor: 18S rRNA, 28S rRNA, 5.8S rRNA, ... Authors: Acosta-Reyes, F.J, Neupane, R, Frank, J, Fernandez, I.S. Deposit date: 2019-05-30 Release date: 2019-09-25 Last modified: 2024-10-23 Method: ELECTRON MICROSCOPY (3.2 Å) Cite: The Israeli acute paralysis virus IRES captures host ribosomes by mimicking a ribosomal state with hybrid tRNAs. Embo J., 38, 2019
6P5K	Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 3) Descriptor: 18S rRNA, 28S rRNA, 5.8S rRNA, ... Authors: Acosta-Reyes, F.J, Neupane, R, Frank, J, Fernandez, I.S. Deposit date: 2019-05-30 Release date: 2019-09-18 Last modified: 2024-11-20 Method: ELECTRON MICROSCOPY (3.1 Å) Cite: The Israeli acute paralysis virus IRES captures host ribosomes by mimicking a ribosomal state with hybrid tRNAs. Embo J., 38, 2019
6P5J	Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 2) Descriptor: 18S rRNA, 28S rRNA, 5.8S rRNA, ... Authors: Acosta-Reyes, F.J, Neupane, R, Frank, J, Fernandez, I.S. Deposit date: 2019-05-30 Release date: 2019-09-18 Last modified: 2024-03-20 Method: ELECTRON MICROSCOPY (3.1 Å) Cite: The Israeli acute paralysis virus IRES captures host ribosomes by mimicking a ribosomal state with hybrid tRNAs. Embo J., 38, 2019
6H4N	Structure of a hibernating 100S ribosome reveals an inactive conformation of the ribosomal protein S1 - 70S Hibernating E. coli Ribosome Descriptor: 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal protein S1, ... Authors: Beckert, B, Turk, M, Czech, A, Berninghausen, O, Beckmann, R, Ignatova, Z, Plitzko, J, Wilson, N.D. Deposit date: 2018-07-22 Release date: 2018-09-05 Last modified: 2024-11-06 Method: ELECTRON MICROSCOPY (3 Å) Cite: Structure of a hibernating 100S ribosome reveals an inactive conformation of the ribosomal protein S1. Nat Microbiol, 3, 2018
8BGH	Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and AAA mRNA codon in the A-site after uncompleted di-peptide formation Descriptor: 16S rRNA RRSB-RRNA, 23S rRNA RRLG-RRNA, 30S ribosomal protein S10, ... Authors: Koziej, L, Glatt, S. Deposit date: 2022-10-27 Release date: 2023-08-16 Method: ELECTRON MICROSCOPY (2.88 Å) Cite: Modulation of translational decoding by m 6 A modification of mRNA. Nat Commun, 14, 2023
8BIM	Initiation complex of the E. coli 70S ribosome with mRNA containing AAm6A codon in the A-site Descriptor: 16S rRNA RRSB-RRNA, 23S rRNA RRLG-RRNA, 30S ribosomal protein S10, ... Authors: Koziej, L, Glatt, S. Deposit date: 2022-11-02 Release date: 2023-08-16 Method: ELECTRON MICROSCOPY (2.04 Å) Cite: Modulation of translational decoding by m 6 A modification of mRNA. Nat Commun, 14, 2023
8BGE	Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and AAm6A mRNA codon in the A-site after uncompleted di-peptide formation Descriptor: 16S rRNA RRSB-RRNA, 23S rRNA RRLG-RRNA, 30S ribosomal protein S10, ... Authors: Koziej, L, Glatt, S. Deposit date: 2022-10-27 Release date: 2023-08-16 Method: ELECTRON MICROSCOPY (2.11 Å) Cite: Modulation of translational decoding by m 6 A modification of mRNA. Nat Commun, 14, 2023
5H5U	Mechanistic insights into the alternative translation termination by ArfA and RF2 Descriptor: 16S rRNA, 23S rRNA, 30S ribosomal protein S10, ... Authors: Ma, C, Kurita, D, Li, N, Chen, Y, Himeno, H, Gao, N. Deposit date: 2016-11-09 Release date: 2017-01-25 Last modified: 2024-10-09 Method: ELECTRON MICROSCOPY (3.01 Å) Cite: Mechanistic insights into the alternative translation termination by ArfA and RF2 Nature, 541, 2017
8BHL	Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and Am6AA mRNA codon in the A-site after uncompleted di-peptide formation Descriptor: 16S rRNA RRSB-RRNA, 23S rRNA RRLG-RRNA, 30S ribosomal protein S10, ... Authors: Koziej, L, Glatt, S. Deposit date: 2022-10-31 Release date: 2023-08-16 Method: ELECTRON MICROSCOPY (2.21 Å) Cite: Modulation of translational decoding by m 6 A modification of mRNA. Nat Commun, 14, 2023
8BHP	Elongating E. coli 70S ribosome containing acylated tRNA(iMet) in the P-site and m6AAA mRNA codon in the A-site after uncompleted di-peptide formation Descriptor: 16S rRNA RRSB-RRNA, 23S rRNA RRLG-RRNA, 30S ribosomal protein S10, ... Authors: Koziej, L, Glatt, S. Deposit date: 2022-10-31 Release date: 2023-08-16 Method: ELECTRON MICROSCOPY (2.37 Å) Cite: Modulation of translational decoding by m 6 A modification of mRNA. Nat Commun, 14, 2023
6Q97	Structure of tmRNA SmpB bound in A site of E. coli 70S ribosome Descriptor: 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal protein S10, ... Authors: Rae, C.D. Deposit date: 2018-12-17 Release date: 2019-03-13 Last modified: 2024-04-24 Method: ELECTRON MICROSCOPY (3.9 Å) Cite: How a circularized tmRNA moves through the ribosome. Science, 363, 2019
6KYV	Crystal Structure of RIG-I and hairpin RNA with G-U wobble base pairs Descriptor: Probable ATP-dependent RNA helicase DDX58, RNA (5'-R(*GP*GP*UP*AP*GP*AP*CP*GP*CP*UP*UP*CP*GP*GP*CP*GP*UP*UP*UP*GP*CP*C)-3'), ZINC ION Authors: Kim, K.-H, Hwang, J, Kim, J.H, Son, K.-P, Jang, Y, Kim, M, Kang, S.-J, Lee, J.-O, Choi, B.-S. Deposit date: 2019-09-20 Release date: 2020-09-23 Last modified: 2023-11-22 Method: X-RAY DIFFRACTION (3 Å) Cite: Structural and biophysical properties of RIG-I bound to dsRNA with G-U wobble base pairs. Rna Biol., 17, 2020
8BIL	Initiation complex of the E. coli 70S ribosome with mRNA containing AAA codon in the A-site. Descriptor: 16S rRNA RRSB-RRNA, 23S rRNA RRLG-RRNA, 30S ribosomal protein S10, ... Authors: Koziej, L, Glatt, S. Deposit date: 2022-11-02 Release date: 2023-08-16 Method: ELECTRON MICROSCOPY (2.04 Å) Cite: Modulation of translational decoding by m 6 A modification of mRNA. Nat Commun, 14, 2023
5MGP	Structural basis for ArfA-RF2 mediated translation termination on stop-codon lacking mRNAs Descriptor: 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal protein S10, ... Authors: Huter, P, Mueller, C, Beckert, B, Arenz, S, Berninghausen, O, Beckmann, R, Wilson, N.D. Deposit date: 2016-11-21 Release date: 2016-12-14 Last modified: 2024-10-23 Method: ELECTRON MICROSCOPY (3.1 Å) Cite: Structural basis for ArfA-RF2-mediated translation termination on mRNAs lacking stop codons. Nature, 541, 2017
7PJY	Structure of the 70S-EF-G-GDP ribosome complex with tRNAs in chimeric state 1 (CHI1-EF-G-GDP) Descriptor: 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal protein S10, ... Authors: Petrychenko, V, Peng, B.Z, Schwarzer, A.C, Peske, F, Rodnina, M.V, Fischer, N. Deposit date: 2021-08-24 Release date: 2021-10-20 Last modified: 2025-03-12 Method: ELECTRON MICROSCOPY (3.1 Å) Cite: Structural mechanism of GTPase-powered ribosome-tRNA movement. Nat Commun, 12, 2021
7PJU	Structure of the 70S ribosome with tRNAs in hybrid state 2 (H2) Descriptor: 16S ribosomal RNA, 23S ribosomal RNA, 30S ribosomal protein S10, ... Authors: Petrychenko, V, Peng, B.Z, Schwarzer, A.C, Peske, F, Rodnina, M.V, Fischer, N. Deposit date: 2021-08-24 Release date: 2021-11-17 Last modified: 2025-03-19 Method: ELECTRON MICROSCOPY (9.5 Å) Cite: Structural mechanism of GTPase-powered ribosome-tRNA movement. Nat Commun, 12, 2021

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