Root of the tree: the significance, evolution, and origins of the ribosome

JC Bowman, AS Petrov, M Frenkel-Pinter… - Chemical …, 2020 - ACS Publications
The ribosome is an ancient molecular fossil that provides a telescope to the origins of life.
Made from RNA and protein, the ribosome translates mRNA to coded protein in all living …

Macromolecular crowding and confinement: biochemical, biophysical, and potential physiological consequences

HX Zhou, G Rivas, AP Minton - Annu. Rev. Biophys., 2008 - annualreviews.org
Expected and observed effects of volume exclusion on the free energy of rigid and flexible
macromolecules in crowded and confined systems, and consequent effects of crowding and …

The ribosome in action: Tuning of translational efficiency and protein folding

MV Rodnina - Protein Science, 2016 - Wiley Online Library
Marina V. Rodnina is the winner of the 2015 Hans Neurath Award. Abstract The cellular
proteome is shaped by the combined activities of the gene expression and quality control …

Atomic structure of anthrax protective antigen pore elucidates toxin translocation

J Jiang, BL Pentelute, RJ Collier, ZH Zhou - Nature, 2015 - nature.com
Anthrax toxin, comprising protective antigen, lethal factor, and oedema factor, is the major
virulence factor of Bacillus anthracis, an agent that causes high mortality in humans and …

A pause for thought along the co-translational folding pathway

AA Komar - Trends in biochemical sciences, 2009 - cell.com
A unifying concept that combines the basic features governing self-organization of proteins
into complex three-dimensional structures in vitro and in vivo is still lacking. Recent …

The geometry of the ribosomal polypeptide exit tunnel

NR Voss, M Gerstein, TA Steitz, PB Moore - Journal of molecular biology, 2006 - Elsevier
The geometry of the polypeptide exit tunnel has been determined using the crystal structure
of the large ribosomal subunit from Haloarcula marismortui. The tunnel is a component of a …

Models of macromolecular crowding effects and the need for quantitative comparisons with experiment

AH Elcock - Current opinion in structural biology, 2010 - Elsevier
In recent years significant effort has been devoted to exploring the potential effects of
macromolecular crowding on protein folding and association phenomena. Theoretical …

Principles of protein stability and their application in computational design

A Goldenzweig, SJ Fleishman - Annual review of biochemistry, 2018 - annualreviews.org
Proteins are increasingly used in basic and applied biomedical research. Many proteins,
however, are only marginally stable and can be expressed in limited amounts, thus …

The ribosomal tunnel as a functional environment for nascent polypeptide folding and translational stalling

DN Wilson, R Beckmann - Current opinion in structural biology, 2011 - Elsevier
As the nascent polypeptide chain is being synthesized, it passes through a tunnel within the
large ribosomal subunit and emerges at the solvent side where protein folding occurs …

Capturing the essence of folding and functions of biomolecules using coarse-grained models

C Hyeon, D Thirumalai - Nature communications, 2011 - nature.com
The distances over which biological molecules and their complexes can function range from
a few nanometres, in the case of folded structures, to millimetres, for example, during …