Results 1 to 10 of about 254,623 (219)
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
Ajeet K Sharma +10 more
arxiv +3 more sources
Stochastic kinetics of ribosomes: single motor properties and collective behavior [PDF]
Physical Review E, vol.80, 011908 (2009), 2009 Synthesis of protein molecules in a cell are carried out by ribosomes. A ribosome can be regarded as a molecular motor which utilizes the input chemical energy to move on a messenger RNA (mRNA) track that also serves as a template for the polymerization of the corresponding protein.
A. S. Spirin +11 more
arxiv +5 more sources
Control of ribosome traffic by position-dependent choice of synonymous codons [PDF]
Phys. Biol. 10 (2013) 056011, 2013 Messenger RNA encodes a sequence of amino acids by using codons. For most amino acids there are multiple synonymous codons that can encode the amino acid. The translation speed can vary from one codon to another, thus there is room for changing the ribosome speed while keeping the amino acid sequence and hence the resulting protein.
Mitarai, Namiko, Pedersen, Steen
arxiv +3 more sources
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.
Agirrezabala +52 more
arxiv +3 more sources
Ribosome recycling, diffusion, and mRNA loop formation in translational regulation [PDF]
Biophysical Journal, 85, 755-773, (2003), 2003 We explore and quantify the physical and biochemical mechanisms that may be relevant in the regulation of translation. After elongation and detachment from the 3' termination site of mRNA, parts of the ribosome machinery can diffuse back to the initiation site, especially if it is held nearby, enhancing overall translation rates.
Arfken +51 more
arxiv +5 more sources
Ribosome collisions and Translation efficiency: Optimization by codon usage and mRNA destabilization [PDF]
J. Mol. Biol. 382, 236-245 (2008), 2008 Individual mRNAs are translated by multiple ribosomes that initiate translation with a few seconds interval. The ribosome speed is codon dependant, and ribosome queuing has been suggested to explain specific data for translation of some mRNAs in vivo. By modelling the stochastic translation process as a traffic problem, we here analyze conditions and ...
Mitarai, Namiko +2 more
arxiv +3 more sources
Gene length as a regulator for ribosome recruitment and protein synthesis: theoretical insights [PDF]
Scientific Reports 7, Article number: 17409 (2017), 2017 Protein synthesis rates are determined, at the translational level, by properties of the transcript's sequence. The efficiency of an mRNA can be tuned by varying the ribosome binding sites controlling the recruitment of the ribosomes, or the codon usage establishing the speed of protein elongation. In this work we propose transcript length as a further
Ciandrini, Luca +2 more
arxiv +7 more sources
Molecular Simulations of the Ribosome and Associated Translation Factors [PDF]
arXiv, 2017 The ribosome is a macromolecular complex which is responsible for protein synthesis in all living cells according to their transcribed genetic information. Using X-ray crystallography and, more recently, cryo-electron microscopy (cryo-EM), the structure of the ribosome was resolved at atomic resolution in many functional and conformational states ...
Hamed H. Alsulami (532535) +3 more
arxiv +5 more sources
Ribosomal Proteins in Ribosome Assembly. [PDF]
BiomoleculesRibosomes are the cellular machinery responsible for translating mRNA into proteins, a process fundamental to all domains of life from bacteria to eukaryotes [...]
Pertschy B, Zierler I.
europepmc +3 more sources
Direct measurement of the mechanical work during translocation by the ribosome [PDF]
eLife, 2014 A detailed understanding of tRNA/mRNA translocation requires measurement of the forces generated by the ribosome during this movement. Such measurements have so far remained elusive and, thus, little is known about the relation between force and ...
Tingting Liu +10 more
doaj +4 more sources