5JVH
 
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4S2X
 | | Structure of E. coli RppH bound to RNA and two magnesium ions | | Descriptor: | MAGNESIUM ION, RNA (5'-R(*(APC)*GP*U)-3'), RNA pyrophosphohydrolase, ... | | Authors: | Vasilyev, N, Serganov, A. | | Deposit date: | 2015-01-23 | | Release date: | 2015-02-11 | | Last modified: | 2023-09-20 | | Method: | X-RAY DIFFRACTION (1.5 Å) | | Cite: | Structures of RNA Complexes with the Escherichia coli RNA Pyrophosphohydrolase RppH Unveil the Basis for Specific 5'-End-dependent mRNA Decay.
J.Biol.Chem., 290, 2015
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8G2A
 | | Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-tRNAphe, peptidyl P-site fMTHSMRC-tRNAmet, and deacylated E-site tRNAphe at 2.45A resolution | | Descriptor: | 16S Ribosomal RNA, 23S Ribosomal RNA, 30S ribosomal protein S10, ... | | Authors: | Aleksandrova, E.V, Wu, K.J.Y, Tresco, B.I.C, Syroegin, E.A, Killeavy, E.E, Balasanyants, S.M, Svetlov, M.S, Gregory, S.T, Atkinson, G.C, Myers, A.G, Polikanov, Y.S. | | Deposit date: | 2023-02-03 | | Release date: | 2023-12-27 | | Last modified: | 2024-07-10 | | Method: | X-RAY DIFFRACTION (2.45 Å) | | Cite: | Structural basis of Cfr-mediated antimicrobial resistance and mechanisms to evade it.
Nat.Chem.Biol., 20, 2024
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4S2Y
 | | Structure of E. coli RppH bound to RNA and three magnesium ions | | Descriptor: | CHLORIDE ION, MAGNESIUM ION, RNA (5'-R(*(APC)*GP*U)-3'), ... | | Authors: | Vasilyev, N, Serganov, A. | | Deposit date: | 2015-01-23 | | Release date: | 2015-02-11 | | Last modified: | 2023-09-20 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | Structures of RNA Complexes with the Escherichia coli RNA Pyrophosphohydrolase RppH Unveil the Basis for Specific 5'-End-dependent mRNA Decay.
J.Biol.Chem., 290, 2015
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6NSH
 | | Modified ASL proline bound to Thermus thermophilus 70S (near-cognate) | | Descriptor: | 16S rRNA, 23S rRNA, 30S ribosomal protein S10, ... | | Authors: | Hoffer, E.D, Maehigashi, T, Subaramanian, S, Hong, S, Dunham, C.M. | | Deposit date: | 2019-01-24 | | Release date: | 2020-10-14 | | Last modified: | 2023-10-11 | | Method: | X-RAY DIFFRACTION (3.397 Å) | | Cite: | Structural insights into mRNA reading frame regulation by tRNA modification and slippery codon-anticodon pairing.
Elife, 9, 2020
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8EVP
 | | Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES), Structure I | | Descriptor: | 18S rRNA, 25S rRNA, 40S ribosomal protein S0-A, ... | | Authors: | Zhao, Y, Rai, J, Li, H. | | Deposit date: | 2022-10-20 | | Release date: | 2023-09-06 | | Method: | ELECTRON MICROSCOPY (2.38 Å) | | Cite: | Regulation of translation by ribosomal RNA pseudouridylation.
Sci Adv, 9, 2023
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8EWC
 | | Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES), Structure II | | Descriptor: | 18S rRNA, 25S rRNA, 40S ribosomal protein S0-A, ... | | Authors: | Zhao, Y, Rai, J, Li, H. | | Deposit date: | 2022-10-22 | | Release date: | 2023-09-06 | | Method: | ELECTRON MICROSCOPY (2.45 Å) | | Cite: | Regulation of translation by ribosomal RNA pseudouridylation.
Sci Adv, 9, 2023
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7ML2
 | | RNA polymerase II pre-initiation complex (PIC3) | | Descriptor: | BJ4_G0004860.mRNA.1.CDS.1, BJ4_G0050160.mRNA.1.CDS.1, DNA-directed RNA polymerase II subunit RPB11, ... | | Authors: | Yang, C, Fujiwara, R, Kim, H.J, Gorbea Colon, J.J, Steimle, S, Garcia, B.A, Murakami, K. | | Deposit date: | 2021-04-27 | | Release date: | 2022-02-02 | | Last modified: | 2022-02-16 | | Method: | ELECTRON MICROSCOPY (3.4 Å) | | Cite: | Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II.
Mol.Cell, 82, 2022
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7UQB
 | | Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state from a SPB1-D52A strain with AlF4 | | Descriptor: | 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 25S rRNA, 5.8S rRNA, ... | | Authors: | Sekulski, K, Cruz, V.E, Weirich, C.S, Erzberger, J.P. | | Deposit date: | 2022-04-19 | | Release date: | 2023-03-15 | | Last modified: | 2024-06-12 | | Method: | ELECTRON MICROSCOPY (2.43 Å) | | Cite: | rRNA methylation by Spb1 regulates the GTPase activity of Nog2 during 60S ribosomal subunit assembly.
Nat Commun, 14, 2023
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7UQZ
 | | Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state from a SPB1 D52A strain | | Descriptor: | 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 25S rRNA, 5.8S rRNA, ... | | Authors: | Sekulski, K, Cruz, V.E, Weirich, C.S, Erzberger, J.P. | | Deposit date: | 2022-04-20 | | Release date: | 2023-03-15 | | Last modified: | 2024-06-12 | | Method: | ELECTRON MICROSCOPY (2.44 Å) | | Cite: | rRNA methylation by Spb1 regulates the GTPase activity of Nog2 during 60S ribosomal subunit assembly.
Nat Commun, 14, 2023
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6Z6K
 | | Cryo-EM structure of yeast reconstituted Lso2 bound to 80S ribosomes | | Descriptor: | 18S rRNA, 25S rRNA, 40S ribosomal protein S0-A, ... | | Authors: | Wells, J.N, Buschauer, R, Mackens-Kiani, T, Best, K, Kratzat, H, Berninghausen, O, Becker, T, Cheng, J, Beckmann, R. | | Deposit date: | 2020-05-28 | | Release date: | 2020-07-29 | | Last modified: | 2024-05-22 | | Method: | ELECTRON MICROSCOPY (3.4 Å) | | Cite: | Structure and function of yeast Lso2 and human CCDC124 bound to hibernating ribosomes.
Plos Biol., 18, 2020
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7V08
 | | Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state from a Spb1 D52A suppressor 3 strain | | Descriptor: | 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 25S rRNA, 5.8S rRNA, ... | | Authors: | Sekulski, K, Cruz, V.E, Weirich, C.S, Erzberger, J.P. | | Deposit date: | 2022-05-10 | | Release date: | 2023-03-15 | | Last modified: | 2024-06-12 | | Method: | ELECTRON MICROSCOPY (2.36 Å) | | Cite: | rRNA methylation by Spb1 regulates the GTPase activity of Nog2 during 60S ribosomal subunit assembly.
Nat Commun, 14, 2023
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6Z6J
 | | Cryo-EM structure of yeast Lso2 bound to 80S ribosomes under native condition | | Descriptor: | 18S rRNA, 25S rRNA, 40S ribosomal protein S0-A, ... | | Authors: | Wells, J.N, Buschauer, R, Mackens-Kiani, T, Best, K, Kratzat, H, Berninghausen, O, Becker, T, Cheng, J, Beckmann, R. | | Deposit date: | 2020-05-28 | | Release date: | 2020-07-29 | | Last modified: | 2024-05-22 | | Method: | ELECTRON MICROSCOPY (3.4 Å) | | Cite: | Structure and function of yeast Lso2 and human CCDC124 bound to hibernating ribosomes.
Plos Biol., 18, 2020
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7UOO
 | | Nucleoplasmic pre-60S intermediate of the Nog2 containing pre-rotation state | | Descriptor: | 2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, 25S rRNA, 5.8S rRNA, ... | | Authors: | Sekulski, K, Cruz, V.E, Weirich, C.S, Erzberger, J.P. | | Deposit date: | 2022-04-13 | | Release date: | 2023-03-15 | | Last modified: | 2024-06-12 | | Method: | ELECTRON MICROSCOPY (2.34 Å) | | Cite: | rRNA methylation by Spb1 regulates the GTPase activity of Nog2 during 60S ribosomal subunit assembly.
Nat Commun, 14, 2023
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8FIZ
 | | Cryo-EM structure of E. coli 70S Ribosome containing mRNA and tRNA (in the transcription-translation complex) | | Descriptor: | 16S rRNA, 23S rRNA, 30S ribosomal protein S10, ... | | Authors: | Florez Ariza, A, Wee, L, Tong, A, Canari, C, Grob, P, Nogales, E, Bustamante, C. | | Deposit date: | 2022-12-18 | | Release date: | 2023-03-29 | | Last modified: | 2024-06-19 | | Method: | ELECTRON MICROSCOPY (3.8 Å) | | Cite: | A trailing ribosome speeds up RNA polymerase at the expense of transcript fidelity via force and allostery.
Cell, 186, 2023
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5IT9
 | | Structure of the yeast Kluyveromyces lactis small ribosomal subunit in complex with the cricket paralysis virus IRES. | | Descriptor: | 18S ribosomal RNA, Cricket paralysis virus IRES RNA, MAGNESIUM ION, ... | | Authors: | Murray, J, Savva, C.G, Shin, B.S, Dever, T.E, Ramakrishnan, V, Fernandez, I.S. | | Deposit date: | 2016-03-16 | | Release date: | 2016-05-18 | | Last modified: | 2024-05-15 | | Method: | ELECTRON MICROSCOPY (3.8 Å) | | Cite: | Structural characterization of ribosome recruitment and translocation by type IV IRES.
Elife, 5, 2016
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7OKX
 | | Structure of active transcription elongation complex Pol II-DSIF (SPT5-KOW5)-ELL2-EAF1 (composite structure) | | Descriptor: | DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB1, ... | | Authors: | Chen, Y, Vos, S.M, Dienemann, C, Ninov, M, Urlaub, H, Cramer, P. | | Deposit date: | 2021-05-18 | | Release date: | 2021-07-14 | | Last modified: | 2024-07-10 | | Method: | ELECTRON MICROSCOPY (3.3 Å) | | Cite: | Allosteric transcription stimulation by RNA polymerase II super elongation complex.
Mol.Cell, 81, 2021
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7OKY
 | | Structure of active transcription elongation complex Pol II-DSIF-ELL2-EAF1(composite structure) | | Descriptor: | DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB1, ... | | Authors: | Chen, Y, Vos, S.M, Dienemann, C, Ninov, M, Urlaub, H, Cramer, P. | | Deposit date: | 2021-05-18 | | Release date: | 2021-07-14 | | Last modified: | 2024-07-10 | | Method: | ELECTRON MICROSCOPY (4.14 Å) | | Cite: | Allosteric transcription stimulation by RNA polymerase II super elongation complex.
Mol.Cell, 81, 2021
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6NTA
 | | Modified ASL proline bound to Thermus thermophilus 70S (cognate) | | Descriptor: | 16S rRNA, 23S rRNA, 30S ribosomal protein S10, ... | | Authors: | Hoffer, E.D, Maehigashi, T, Subaramanian, S, Hong, S, Dunham, C.M. | | Deposit date: | 2019-01-28 | | Release date: | 2020-10-14 | | Last modified: | 2023-10-11 | | Method: | X-RAY DIFFRACTION (3.1 Å) | | Cite: | Structural insights into mRNA reading frame regulation by tRNA modification and slippery codon-anticodon pairing.
Elife, 9, 2020
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6MPF
 | | Structure of the Thermus thermophilus 30S ribosomal subunit complexed with a 2-thiocytidine (s2C32) and inosine (I34) modified anticodon stem loop (ASL) of Escherichia coli transfer RNA Arginine 1 (TRNAARG1) bound to an mRNA with an CGC-codon in the A-site and paromomycin | | Descriptor: | 16S rRNA, 30S ribosomal protein S10, 30S ribosomal protein S11, ... | | Authors: | Cantara, W.A, DeMirci, H, Agris, P.F. | | Deposit date: | 2018-10-05 | | Release date: | 2019-04-24 | | Last modified: | 2023-10-11 | | Method: | X-RAY DIFFRACTION (3.33 Å) | | Cite: | A Structural Basis for Restricted Codon Recognition Mediated by 2-thiocytidine in tRNA Containing a Wobble Position Inosine.
J.Mol.Biol., 432, 2020
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7OL0
 | | Structure of active transcription elongation complex Pol II-DSIF (SPT5-KOW5) | | Descriptor: | DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB1, ... | | Authors: | Chen, Y, Vos, S.M, Dienemann, C, Ninov, M, Urlaub, H, Cramer, P. | | Deposit date: | 2021-05-18 | | Release date: | 2021-07-14 | | Last modified: | 2024-07-10 | | Method: | ELECTRON MICROSCOPY (3 Å) | | Cite: | Allosteric transcription stimulation by RNA polymerase II super elongation complex.
Mol.Cell, 81, 2021
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7QIZ
 | | Specific features and methylation sites of a plant 80S ribosome | | Descriptor: | 1,4-DIAMINOBUTANE, 18S, 25S rRNA, ... | | Authors: | Cottilli, P, Itoh, Y, Amunts, A. | | Deposit date: | 2021-12-16 | | Release date: | 2022-08-03 | | Last modified: | 2024-04-24 | | Method: | ELECTRON MICROSCOPY (2.38 Å) | | Cite: | Cryo-EM structure and rRNA modification sites of a plant ribosome.
Plant Commun., 3, 2022
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7ML0
 | | RNA polymerase II pre-initiation complex (PIC1) | | Descriptor: | BJ4_G0050160.mRNA.1.CDS.1, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerase II subunit RPB3, ... | | Authors: | Yang, C, Fujiwara, R, Kim, H.J, Gorbea Colon, J.J, Steimle, S, Garcia, B.A, Murakami, K. | | Deposit date: | 2021-04-27 | | Release date: | 2022-02-02 | | Last modified: | 2022-02-16 | | Method: | ELECTRON MICROSCOPY (3 Å) | | Cite: | Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II.
Mol.Cell, 82, 2022
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7ML1
 | | RNA polymerase II pre-initiation complex (PIC2) | | Descriptor: | BJ4_G0050160.mRNA.1.CDS.1, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerase II subunit RPB3, ... | | Authors: | Yang, C, Fujiwara, R, Kim, H.J, Gorbea Colon, J.J, Steimle, S, Garcia, B.A, Murakami, K. | | Deposit date: | 2021-04-27 | | Release date: | 2022-02-02 | | Last modified: | 2022-02-16 | | Method: | ELECTRON MICROSCOPY (4 Å) | | Cite: | Structural visualization of de novo transcription initiation by Saccharomyces cerevisiae RNA polymerase II.
Mol.Cell, 82, 2022
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7NQL
 | | 55S mammalian mitochondrial ribosome with ICT1 and P site tRNAMet | | Descriptor: | 12S rRNA, 16S rRNA, 28S ribosomal protein S16, ... | | Authors: | Kummer, E, Schubert, K, Ban, N. | | Deposit date: | 2021-03-01 | | Release date: | 2021-05-05 | | Last modified: | 2021-12-15 | | Method: | ELECTRON MICROSCOPY (3.4 Å) | | Cite: | Structural basis of translation termination, rescue, and recycling in mammalian mitochondria.
Mol.Cell, 81, 2021
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