Distribution of dwell times of a ribosome: effects of infidelity, kinetic proofreading and ribosome crowding [PDF]
Physical Biology, 8 (2011) 026005, 2010 Ribosome is a molecular machine that polymerizes a protein where the sequence of the amino acid residues, the monomers of the protein, is dictated by the sequence of codons (triplets of nucleotides) on a messenger RNA (mRNA) that serves as the template. The ribosome is a molecular motor that utilizes the template mRNA strand also as the track. Thus, in
arxiv +1 more source
Variant ribosomal RNA alleles are conserved and exhibit tissue-specific expression
Science Advances, 2018 Ribosomal RNA sequence variants are conserved, exhibit tissue-specific expression, and are found in actively translating ribosomes. The ribosome, the integration point for protein synthesis in the cell, is conventionally considered a homogeneous ...
Matthew M. Parks +10 more
semanticscholar +1 more source
Loss of the ribosomal RNA methyltransferase NSUN5 impairs global protein synthesis and normal growth
Nucleic Acids Research, 2019 Modifications of ribosomal RNA expand the nucleotide repertoire and thereby contribute to ribosome heterogeneity and translational regulation of gene expression.
C. Heissenberger +22 more
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Stochastic theory of protein synthesis and polysome: ribosome profile on a single mRNA transcript [PDF]
Journal of Theoretical Biology, vol.289, 36-46 (2011), 2011 The process of polymerizing a protein by a ribosome, using a messenger RNA (mRNA) as the corresponding template, is called {\it translation}. Ribosome may be regarded as a molecular motor for which the mRNA template serves also as the track. Often several ribosomes may translate the same (mRNA) simultaneously.
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Small Non-Coding RNAs Derived from Eukaryotic Ribosomal RNA
Non-Coding RNA, 2019 The advent of RNA-sequencing (RNA-Seq) technologies has markedly improved our knowledge and expanded the compendium of small non-coding RNAs, most of which derive from the processing of longer RNA precursors.
Marine Lambert, A. Benmoussa, P. Provost
semanticscholar +1 more source
Dynamics of ribosomes in mRNA translation under steady and non-steady state conditions [PDF]
Phys. Rev. E 101, 062404 (2020), 2020 Recent advances in DNA sequencing and fluorescence imaging have made it possible to monitor the dynamics of ribosomes actively engaged in messenger RNA (mRNA) translation. Here, we model these experiments within the inhomogeneous totally asymmetric simple exclusion process (TASEP) using realistic kinetic parameters.
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Ribosomal RNA, the lens into life [PDF]
RNA, 2015 Our world is, to a first approximation, a microbial world—even our own lives are evolutionarily and molecularly linked to that which we cannot see. This “invisible” world contains nearly unfathomable molecular and genetic diversity. Throughout the 20th century, a metaphor of “war against disease” prevailed: Microbes were hunted under the guise of ...
Daniel McDonald +3 more
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The human methyltransferase ZCCHC4 catalyses N6-methyladenosine modification of 28S ribosomal RNA
Nucleic Acids Research, 2019 RNA methylations are essential both for RNA structure and function, and are introduced by a number of distinct methyltransferases (MTases). In recent years, N6-methyladenosine (m6A) modification of eukaryotic mRNA has been subject to intense studies, and
R. Pinto +15 more
semanticscholar +1 more source
2′-O-Methylation of Ribosomal RNA: Towards an Epitranscriptomic Control of Translation?
Biomolecules, 2018 Ribosomal RNA (rRNA) undergoes post-transcriptional modification of over 200 nucleotides, predominantly 2′-O-methylation (2′-O-Me). 2′-O-Methylation protects RNA from hydrolysis and modifies RNA strand flexibility but does not contribute to Watson-Crick ...
P. Monaco +3 more
semanticscholar +1 more source
Stochasticity and traffic jams in the transcription of ribosomal RNA: Intriguing role of termination and antitermination [PDF]
Proc. Natl. Acad. Sci. USA 105, 18159-18164 (2008), 2008 In fast growing bacteria, ribosomal RNA (rRNA) is required to be transcribed at very high rates to sustain the high cellular demand on ribosome synthesis. This results in dense traffic of RNA polymerases (RNAP). We developed a stochastic model, integrating results of single-molecule and quantitative in vivo studies of E.
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