Preliminary results from structural systems biology approach in Tetrahymena thermophila reveal novel perspectives for this toxicological model

2018 ◽  
Vol 201 (1) ◽  
pp. 51-59 ◽  
Author(s):  
Christos T. Chasapis
2012 ◽  
Vol 40 (11) ◽  
pp. 2295-2306 ◽  
Author(s):  
Shannon E. Telesco ◽  
Ravi Radhakrishnan

2010 ◽  
Vol 391 (7) ◽  
Author(s):  
Dmitri I. Svergun

Abstract Small-angle scattering (SAS) of X-rays and neutrons reveals low-resolution structures of biological macromolecules in solution. With the recent experimental and methodological advances, SAS became a unique tool for characterising biological systems. The method covers an extremely broad range of molecule sizes (from a few kDa to hundreds of MDa) and experimental conditions (temperature, pH, salinity, ligand addition, etc.), which is of primary importance for a systemic approach in structural biology. The method provides unique information about the overall structure and conformational changes of native individual proteins, functional complexes, flexible macromolecules and hierarchical systems. New developments in small-angle X-ray and neutron scattering studies of biological macromolecules in solution are briefly reviewed, with a special emphasis on technical and methodological approaches useful for structural systems biology. Possibilities of synergistic use of the method with other techniques are considered.


Science ◽  
2013 ◽  
Vol 340 (6137) ◽  
pp. 1220-1223 ◽  
Author(s):  
Roger L. Chang ◽  
Kathleen Andrews ◽  
Donghyuk Kim ◽  
Zhanwen Li ◽  
Adam Godzik ◽  
...  

Genome-scale network reconstruction has enabled predictive modeling of metabolism for many systems. Traditionally, protein structural information has not been represented in such reconstructions. Expansion of a genome-scale model of Escherichia coli metabolism by including experimental and predicted protein structures enabled the analysis of protein thermostability in a network context. This analysis allowed the prediction of protein activities that limit network function at superoptimal temperatures and mechanistic interpretations of mutations found in strains adapted to heat. Predicted growth-limiting factors for thermotolerance were validated through nutrient supplementation experiments and defined metabolic sensitivities to heat stress, providing evidence that metabolic enzyme thermostability is rate-limiting at superoptimal temperatures. Inclusion of structural information expanded the content and predictive capability of genome-scale metabolic networks that enable structural systems biology of metabolism.


2014 ◽  
Vol 12 (1) ◽  
pp. 85-91 ◽  
Author(s):  
Graham T Johnson ◽  
Ludovic Autin ◽  
Mostafa Al-Alusi ◽  
David S Goodsell ◽  
Michel F Sanner ◽  
...  

Author(s):  
Robert B. Russell, ◽  
Gordana Apic ◽  
Olga Kalinina ◽  
Leonardo Trabuco ◽  
Matthew J. Betts ◽  
...  

2012 ◽  
Vol 8 (10) ◽  
pp. e1002738 ◽  
Author(s):  
Tammy M. K. Cheng ◽  
Lucas Goehring ◽  
Linda Jeffery ◽  
Yu-En Lu ◽  
Jacqueline Hayles ◽  
...  

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