Concept

Nucleic acid double helix

Publications associées (165)

Visualizing phosphodiester-bond hydrolysis by an endonuclease

The enzymatic hydrolysis of DNA phosphodiester bonds has been widely studied, but the chemical reaction has not yet been observed. Here we follow the generation of a DNA double-strand break (DSB) by the Desulfurococcus mobilis homing endonuclease I-DmoI, t ...

2014

Analyzing ion distributions around DNA

John Maddocks, Marco Pasi

We present a new method for analyzing ion, or molecule, distributions around helical nucleic acids and illustrate the approach by analyzing data derived from molecular dynamics simulations. The analysis is based on the use of curvilinear helicoidal coordin ...

Oxford University Press2014

OAS proteins and cGAS: unifying concepts in sensing and responding to cytosolic nucleic acids

Andrea Ablasser

Recent discoveries in the field of innate immunity have highlighted the existence of a family of nucleic acid-sensing proteins that have similar structural and functional properties. These include the well-known oligoadenylate synthase (OAS) family protein ...

Nature Publishing Group2014

cgDNA: a software package for the prediction of sequence-dependent coarse-grain free energies of B-form DNA

John Maddocks, Daiva Petkeviciute, Marco Pasi

cgDNA is a package for the prediction of sequence-dependent configuration-space free energies for B-form DNA at the coarse-grain level of rigid bases. For a fragment of any given length and sequence, cgDNA calculates the configuration of the associated fre ...

Oxford Univ Press2014

Real-Time Monitoring of Protein Conformational Changes Using a Nano-Mechanical Sensor

Giovanni Dietler, Paolo De Los Rios, Sandor Kasas, Giovanni Longo, Dusan Vobornik, Fabrizio Benedetti, Livan Bladimir Alonso Sarduy

Proteins can switch between different conformations in response to stimuli, such as pH or temperature variations, or to the binding of ligands. Such plasticity and its kinetics can have a crucial functional role, and their characterization has taken center ...

Public Library of Science2014

Ideal saturated MHD helical structures in axisymmetric hybrid plasmas

Jonathan Graves, Wilfred Anthony Cooper, Daniele Brunetti

Kinked saturated m = 1 helical structures are frequently observed in tokamak hybrid plasmas and in reversed field pinches (RFP). These modes occur when an extremum in the safety factor is close to, but necessarily resonant with, a low order rational (typic ...

International Atomic Energy Agency2014

A Mechanochemical Switch to Control Radical Intermediates

Ursula Röthlisberger, Elizabeth Claire Brunk

B-12-dependent enzymes employ radical species with exceptional prowess to catalyze some of the most chemically challenging, thermodynamically unfavorable reactions. However, dealing with highly reactive intermediates is an extremely demanding task, requiri ...

2014

Living in interesting times

Béatrice Ferrari

Interactions of transmembrane (TM) helices play a key role in many cell processes. The configuration and cross angle these helices adopt are traditionally attributed to specific residue interactions. We present a different approach, in which specific resid ...

EPFL2013

Fine DNA structure revealed by constant height frequency modulation AFM imaging

Giovanni Dietler, Dusan Vobornik, Andrea Cerreta

Few examples of sub nanometer resolution on biomolecules can be found in literature. In particular, AFM experiments on DNA mostly fail to show the double helical groove periodicity, and so far such a feat was only achieved in liquid. Here we describe a met ...

Elsevier2013

Enhanced Groove Geometry for Herringbone Grooved Journal Bearings

Jürg Alexander Schiffmann

Although gas-lubricated herringbone grooved journal bearings (HGJB) are known for high rotordynamic stability thresholds, small clearance to diameter ratios are required for stable rotor operation. Tight clearances not only increase bearing losses but also ...

Asme2013

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