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Structural basis of the translational elongation cycle
scientific article published on January 2013
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scholarly article
1 reference
stated in
Europe PubMed Central
PubMed ID
23746255
retrieved
29 August 2017
title
Structural basis of the translational elongation cycle
(English)
1 reference
stated in
Europe PubMed Central
PubMed ID
23746255
retrieved
29 August 2017
author
Venkatraman Ramakrishnan
series ordinal
2
1 reference
stated in
Europe PubMed Central
PubMed ID
23746255
retrieved
29 August 2017
Rebecca Voorhees
object named as
Rebecca M Voorhees
series ordinal
1
0 references
publication date
1 January 2013
1 reference
stated in
Europe PubMed Central
PubMed ID
23746255
retrieved
29 August 2017
number of pages
34
1 reference
based on heuristic
inferred from page(s)
published in
Annual Review of Biochemistry
1 reference
stated in
Europe PubMed Central
PubMed ID
23746255
retrieved
29 August 2017
volume
82
1 reference
stated in
Europe PubMed Central
PubMed ID
23746255
retrieved
29 August 2017
page(s)
203-236
1 reference
stated in
Europe PubMed Central
PubMed ID
23746255
retrieved
29 August 2017
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The antibiotic viomycin traps the ribosome in an intermediate state of translocation.
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Evidence that the G2661 region of 23S rRNA is located at the ribosomal binding sites of both elongation factors.
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The active site of the ribosome is composed of two layers of conserved nucleotides with distinct roles in peptide bond formation and peptide release.
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tRNA residues that have coevolved with their anticodon to ensure uniform and accurate codon recognition.
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A ratchet-like inter-subunit reorganization of the ribosome during translocation
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Proofreading of the codon-anticodon interaction on ribosomes
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Ribosomal protein L7/L12 is required for optimal translation
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A Common Structural Motif in Elongation Factor Ts and Ribosomal Protein L7/12 May Be Involved in the Interaction with Elongation Factor Tu
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The structures of the anti-tuberculosis antibiotics viomycin and capreomycin bound to the 70S ribosome
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An induced-fit mechanism to promote peptide bond formation and exclude hydrolysis of peptidyl-tRNA.
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Peptide bond formation does not involve acid-base catalysis by ribosomal residues
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pH-sensitivity of the ribosomal peptidyl transfer reaction dependent on the identity of the A-site aminoacyl-tRNA.
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Functional insights from the structure of the 30S ribosomal subunit and its interactions with antibiotics
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The Geometry of the Ribosomal Polypeptide Exit Tunnel
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Structures of the bacterial ribosome in classical and hybrid states of tRNA binding
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Recognition of cognate transfer RNA by the 30S ribosomal subunit
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A two-step chemical mechanism for ribosome-catalysed peptide bond formation
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Structural basis for translation termination on the 70S ribosome
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Location of exit channel for nascent protein in 80S ribosome
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A fast dynamic mode of the EF-G-bound ribosome.
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Different substrate-dependent transition states in the active site of the ribosome.
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Structural insight into nascent polypeptide chain-mediated translational stalling.
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Functional role of the sarcin-ricin loop of the 23S rRNA in the elongation cycle of protein synthesis
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The G2447A mutation does not affect ionization of a ribosomal group taking part in peptide bond formation
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Crystal structure of active elongation factor Tu reveals major domain rearrangements
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Elongation factor G stabilizes the hybrid-state conformation of the 70S ribosome
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Kinetically competent intermediates in the translocation step of protein synthesis
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Hydrolysis of fMet-tRNA by peptidyl transferase
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Functional elucidation of a key contact between tRNA and the large ribosomal subunit rRNA during decoding
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Peptide-bond synthesis on the ribosome: no free vicinal hydroxy group required on the terminal ribose residue of peptidyl-tRNA.
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Transfer RNA structure and coding specificity. II. A D-arm tertiary interaction that restricts coding range.
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Mechanism of peptide bond synthesis on the ribosome
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Cryoelectron microscopy structures of the ribosome complex in intermediate states during tRNA translocation
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The hybrid state of tRNA binding is an authentic translation elongation intermediate
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Crystal structure of a 70S ribosome-tRNA complex reveals functional interactions and rearrangements
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Structures of the bacterial ribosome at 3.5 A resolution
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Crystal structure of the ternary complex of Phe-tRNAPhe, EF-Tu, and a GTP analog
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Rate and accuracy of bacterial protein synthesis revisited
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Visualization of elongation factor Tu on the Escherichia coli ribosome.
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Visualization of the eEF2–80S Ribosome Transition-State Complex by Cryo-Electron Microscopy
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Interaction of helix D of elongation factor Tu with helices 4 and 5 of protein L7/12 on the ribosome.
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Kinetic isotope effect analysis of the ribosomal peptidyl transferase reaction
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Visualization of elongation factor G on the Escherichia coli 70S ribosome: the mechanism of translocation
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An active role for tRNA in decoding beyond codon:anticodon pairing
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Transient tertiary structure formation within the ribosome exit port
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Head swivel on the ribosome facilitates translocation by means of intra-subunit tRNA hybrid sites
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The 2'-OH group of the peptidyl-tRNA stabilizes an active conformation of the ribosomal PTC.
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Substrate-assisted catalysis of peptide bond formation by the ribosome
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Kinetic Proofreading: A New Mechanism for Reducing Errors in Biosynthetic Processes Requiring High Specificity
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Delayed release of inorganic phosphate from elongation factor Tu following GTP hydrolysis on the ribosome.
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9 October 2022
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Crystal structure of the hybrid state of ribosome in complex with the guanosine triphosphatase release factor 3
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Hydrolysis of GTP by elongation factor G drives tRNA movement on the ribosome
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Structural basis for interaction of the ribosome with the switch regions of GTP-bound elongation factors
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The complete atomic structure of the large ribosomal subunit at 2.4 A resolution
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9 October 2022
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Mutations of highly conserved bases in the peptidyltransferase center induce compensatory rearrangements in yeast ribosomes
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9 October 2022
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Analysis of predictions for the catalytic mechanism of ribosomal peptidyl transfer
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The importance of structural transitions of the switch II region for the functions of elongation factor Tu on the ribosome
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9 October 2022
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Thiostrepton inhibits the turnover but not the GTPase of elongation factor G on the ribosome.
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9 October 2022
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Optimization of speed and accuracy of decoding in translation
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9 October 2022
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Correlated conformational events in EF-G and the ribosome regulate translocation
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Transfer RNA structure and coding specificity. I. Evidence that a D-arm mutation reduces tRNA dissociation from the ribosome.
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tRNA selection and kinetic proofreading in translation
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Tryptophan tRNA of Escherichia coli
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Selection of the initiator tRNA by Escherichia coli initiation factors.
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Role of hybrid tRNA-binding states in ribosomal translocation.
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Following translation by single ribosomes one codon at a time.
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9 October 2022
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A strong suppressor specific for UGA.
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9 October 2022
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Non-bulk-like solvent behavior in the ribosome exit tunnel
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Comment on "The mechanism for activation of GTP hydrolysis on the ribosome"
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9 October 2022
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Energetic contribution of tRNA hybrid state formation to translocation catalysis on the ribosome.
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9 October 2022
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What are the roles of substrate-assisted catalysis and proximity effects in peptide bond formation by the ribosome?
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Single-molecule fluorescence measurements of ribosomal translocation dynamics.
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9 October 2022
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Tryptophan transfer RNA as the UGA suppressor
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9 October 2022
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Structure of the 70S ribosome complexed with mRNA and tRNA
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9 October 2022
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The Crystal Structure of the Ribosome Bound to EF-Tu and Aminoacyl-tRNA
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9 October 2022
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Conformational sampling of aminoacyl-tRNA during selection on the bacterial ribosome.
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9 October 2022
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Transient conformational states of aminoacyl-tRNA during ribosome binding catalyzed by elongation factor Tu.
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
The use of isotope effects to determine enzyme mechanisms
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9 October 2022
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A role for the 30S subunit E site in maintenance of the translational reading frame
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Further in vitro exploration fails to support the allosteric three-site model
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Nascent membrane and secretory proteins differ in FRET-detected folding far inside the ribosome and in their exposure to ribosomal proteins.
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COCI
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Insights into Translational Termination from the Structure of RF2 Bound to the Ribosome
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9 October 2022
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The ribosome as an entropy trap
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9 October 2022
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Rotation of the head of the 30S ribosomal subunit during mRNA translocation
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COCI
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Structure of ratcheted ribosomes with tRNAs in hybrid states
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9 October 2022
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Simulating movement of tRNA into the ribosome during decoding
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Initial binding of the elongation factor Tu.GTP.aminoacyl-tRNA complex preceding codon recognition on the ribosome.
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
The Structure of the Ribosome with Elongation Factor G Trapped in the Posttranslocational State
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
EF-G-independent reactivity of a pre-translocation-state ribosome complex with the aminoacyl tRNA substrate puromycin supports an intermediate (hybrid) state of tRNA binding
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
GTPase activation of elongation factors Tu and G on the ribosome
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9 October 2022
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Kinetic determinants of high-fidelity tRNA discrimination on the ribosome
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Induced fit in initial selection and proofreading of aminoacyl-tRNA on the ribosome
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Chemical engineering of the peptidyl transferase center reveals an important role of the 2'-hydroxyl group of A2451
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9 October 2022
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Rapid peptide bond formation on isolated 50S ribosomal subunits
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9 October 2022
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Rapid kinetic analysis of EF-G-dependent mRNA translocation in the ribosome
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9 October 2022
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The structural basis of ribosome activity in peptide bond synthesis
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9 October 2022
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Guanosinetriphosphatase activity dependent on elongation factor Tu and ribosomal protein L7/L12
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Converting structural information into an allosteric-energy-based picture for elongation factor Tu activation by the ribosome
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Genetic code translation displays a linear trade-off between efficiency and accuracy of tRNA selection
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
How mutations in tRNA distant from the anticodon affect the fidelity of decoding
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Specificity of RNA-RNA helix recognition
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9 October 2022
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Coupling of ribosomal L1 stalk and tRNA dynamics during translation elongation
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9 October 2022
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A new understanding of the decoding principle on the ribosome
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9 October 2022
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Ribosomal peptidyl transferase can withstand mutations at the putative catalytic nucleotide
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Ribosomal acidic phosphoproteins P1 and P2 are not required for cell viability but regulate the pattern of protein expression in Saccharomyces cerevisiae
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9 October 2022
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A universal mode of helix packing in RNA.
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9 October 2022
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Quality control by the ribosome following peptide bond formation
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9 October 2022
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Problems with the Analyses of the Ribosomal Allosteric Three-site Model
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9 October 2022
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Crystal structure of release factor RF3 trapped in the GTP state on a rotated conformation of the ribosome
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Following the intersubunit conformation of the ribosome during translation in real time
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Structural basis of the ribosomal machinery for peptide bond formation, translocation, and nascent chain progression
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Conformational change of elongation factor Tu (EF-Tu) induced by antibiotic binding. Crystal structure of the complex between EF-Tu.GDP and aurodox
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9 October 2022
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Kinetic amplification of enzyme discrimination
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9 October 2022
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Effect of the antibiotic purpuromycin on cell-free protein-synthesizing systems
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
A signal relay between ribosomal protein S12 and elongation factor EF-Tu during decoding of mRNA.
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9 October 2022
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Evolving views of DNA replication (in)fidelity
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9 October 2022
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Regulatory nascent peptides in the ribosomal tunnel
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9 October 2022
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Transfer RNA-mediated regulation of ribosome dynamics during protein synthesis
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9 October 2022
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mRNA translocation occurs during the second step of ribosomal intersubunit rotation
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
What recent ribosome structures have revealed about the mechanism of translation
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9 October 2022
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Unusual resistance of peptidyl transferase to protein extraction procedures
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
An elongation factor G-induced ribosome rearrangement precedes tRNA-mRNA translocation
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Essential role of histidine 84 in elongation factor Tu for the chemical step of GTP hydrolysis on the ribosome
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
RNA tertiary interactions in the large ribosomal subunit: the A-minor motif
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9 October 2022
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Structural insights into translational fidelity
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9 October 2022
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Interaction of tRNA with 23S rRNA in the ribosomal A, P, and E sites
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Structures of the Escherichia coli ribosome with antibiotics bound near the peptidyl transferase center explain spectra of drug action
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Factor-free ("non-enzymic") and factor-dependent systems of translation of polyuridylic acid by Escherichia coli ribosomes
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9 October 2022
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Release of peptide promoted by the GGQ motif of class 1 release factors regulates the GTPase activity of RF3.
1 reference
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Mutations in 23 S ribosomal RNA perturb transfer RNA selection and can lead to streptomycin dependence.
1 reference
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Inhibition of the ribosomal peptidyl transferase reaction by the mycarose moiety of the antibiotics carbomycin, spiramycin and tylosin
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9 October 2022
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Novel ribosomal mutations affecting translational accuracy, antibiotic resistance and virulence of Salmonella typhimurium.
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Structural insights into the roles of water and the 2' hydroxyl of the P site tRNA in the peptidyl transferase reaction
1 reference
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Structural basis for the function of the ribosomal L7/12 stalk in factor binding and GTPase activation
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Cryo-EM reveals an active role for aminoacyl-tRNA in the accommodation process
1 reference
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Substrate-assisted catalysis as a mechanism for GTP hydrolysis of p21ras and other GTP-binding proteins.
1 reference
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Mutations at the accommodation gate of the ribosome impair RF2-dependent translation termination
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Structures of MLSBK antibiotics bound to mutated large ribosomal subunits provide a structural explanation for resistance
1 reference
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9 October 2022
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Free-energy dissipation constraints on the accuracy of enzymatic selections
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9 October 2022
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mRNA composition and control of bacterial gene expression
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9 October 2022
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Real-time tRNA transit on single translating ribosomes at codon resolution
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9 October 2022
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Locking and unlocking of ribosomal motions
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9 October 2022
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Erythromycin resistance by L4/L22 mutations and resistance masking by drug efflux pump deficiency
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9 October 2022
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Structural basis for the interaction of antibiotics with the peptidyl transferase centre in eubacteria
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Different aa-tRNAs are selected uniformly on the ribosome
1 reference
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retrieved
9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Spontaneous formation of the unlocked state of the ribosome is a multistep process
1 reference
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Structures of five antibiotics bound at the peptidyl transferase center of the large ribosomal subunit
1 reference
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
A single adenosine with a neutral pKa in the ribosomal peptidyl transferase center
1 reference
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
A cradle for new proteins: trigger factor at the ribosome
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9 October 2022
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Nascent polypeptide chains emerge from the exit domain of the large ribosomal subunit: immune mapping of the nascent chain
1 reference
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Hyperaccurate and error-prone ribosomes exploit distinct mechanisms during tRNA selection
1 reference
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
A Steric Block in Translation Caused by the Antibiotic Spectinomycin
1 reference
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Species-specific antibiotic-ribosome interactions: implications for drug development
1 reference
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9 October 2022
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https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Structural insights into peptide bond formation
1 reference
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9 October 2022
reference URL
https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
The E-site story: the importance of maintaining two tRNAs on the ribosome during protein synthesis.
1 reference
stated in
COCI
retrieved
9 October 2022
reference URL
https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Accuracy modulating mutations of the ribosomal protein S4-S5 interface do not necessarily destabilize the rps4-rps5 protein-protein interaction.
1 reference
stated in
COCI
retrieved
9 October 2022
reference URL
https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Insights into substrate stabilization from snapshots of the peptidyl transferase center of the intact 70S ribosome
1 reference
stated in
COCI
retrieved
9 October 2022
reference URL
https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Distortion of tRNA upon near-cognate codon recognition on the ribosome
1 reference
stated in
COCI
retrieved
9 October 2022
reference URL
https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Translocation in Protein Synthesis: A Hybrid Structure Model
1 reference
stated in
COCI
retrieved
9 October 2022
reference URL
https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
How should we think about the ribosome?
1 reference
stated in
COCI
retrieved
9 October 2022
reference URL
https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Uniform binding of aminoacylated transfer RNAs to the ribosomal A and P sites.
1 reference
stated in
COCI
retrieved
9 October 2022
reference URL
https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Intermediate states in the movement of transfer RNA in the ribosome
1 reference
stated in
COCI
retrieved
9 October 2022
reference URL
https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Revisiting the structures of several antibiotics bound to the bacterial ribosome
1 reference
stated in
COCI
retrieved
9 October 2022
reference URL
https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
GTPase activation of elongation factor EF-Tu by the ribosome during decoding
1 reference
stated in
COCI
retrieved
9 October 2022
reference URL
https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Probing ribosome-nascent chain complexes produced in vivo by NMR spectroscopy
1 reference
stated in
COCI
retrieved
9 October 2022
reference URL
https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Codon--anticodon pairing: the wobble hypothesis
1 reference
stated in
COCI
retrieved
9 October 2022
reference URL
https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
An uncharged amine in the transition state of the ribosomal peptidyl transfer reaction
1 reference
stated in
COCI
retrieved
9 October 2022
reference URL
https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Ribosome-induced changes in elongation factor Tu conformation control GTP hydrolysis
1 reference
stated in
COCI
retrieved
9 October 2022
reference URL
https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-113009-092313
Identifiers
DOI
10.1146/ANNUREV-BIOCHEM-113009-092313
1 reference
stated in
Europe PubMed Central
PubMed ID
23746255
retrieved
29 August 2017
PubMed ID
23746255
1 reference
stated in
Europe PubMed Central
PubMed ID
23746255
retrieved
29 August 2017
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