The importance of dynamics in integrative modeling of supramolecular assemblies

Current Opinion in Structural Biology
Giorgio E TamòMatteo Dal Peraro

Abstract

Revealing the atomistic architecture of supramolecular complexes is a fundamental step toward a deeper understanding of cellular functioning. To date, this formidable task is facilitated by an emerging array of integrative modeling approaches that combine experimental data from different sources. One major challenge these methods have to face is the treatment of the dynamic rearrangements of the individual subunits upon assembly. While this flexibility can be sampled at different levels, integrating native dynamic determinants with available experimental inputs can provide an effective way to reveal the molecular recognition mechanisms at the basis of supramolecular assembly.

References

Dec 9, 1998·Proceedings of the National Academy of Sciences of the United States of America·J G MandellE A Komives
May 1, 1999·Journal of Structural Biology·W WriggersJ A McCammon
Feb 13, 2003·Journal of the American Chemical Society·Cyril DominguezAlexandre M J J Bonvin
Jul 9, 2005·Science·Wolfgang RiepingMichael Nilges
Oct 11, 2005·Biochimica Et Biophysica Acta·Andreas May, Martin Zacharias
Dec 24, 2005·Proteins·Karine BastardMartin Zacharias
Feb 1, 2006·Proceedings of the National Academy of Sciences of the United States of America·Michael HabeckMichael Nilges
Mar 7, 2007·Journal of Proteome Research·Aalt D J van DijkAlexandre M J J Bonvin
Apr 16, 2008·Annual Review of Biochemistry·Rhiju Das, David Baker
May 13, 2008·Journal of Molecular Biology·Shalom D GoldbergWilliam F Degrado
Apr 29, 2009·Methods : a Companion to Methods in Enzymology·Leonardo G TrabucoKlaus Schulten
Jul 15, 2009·Journal of Molecular Biology·Frank DiMaioDavid Baker
Oct 27, 2009·Nature Structural & Molecular Biology·Stephen G Brohawn, Thomas U Schwartz
Feb 23, 2010·Biophysics Reviews·Willy Wriggers
Jul 8, 2010·Proteins·Efrat MashiachHaim J Wolfson
Apr 8, 2011·Bioinformatics·Ahmet BakanIvet Bahar
Jul 7, 2011·PloS One·Frank DiMaioIngemar André
Jul 23, 2011·IEEE/ACM Transactions on Computational Biology and Bioinformatics·Samuel Coulbourn FloresRuss Biagio Altman
Aug 30, 2011·Bioinformatics·José Ramón Lopéz-BlancoPablo Chacón
Oct 27, 2011·Progress in Nuclear Magnetic Resonance Spectroscopy·Julia Koehler, Jens Meiler
Nov 8, 2011·The EMBO Journal·Alan C M CheungPatrick Cramer
Nov 23, 2011·Proceedings of the National Academy of Sciences of the United States of America·Faruck MorcosMartin Weigt
Feb 7, 2012·Proceedings of the National Academy of Sciences of the United States of America·Keren LaskerWolfgang Baumeister
Jun 15, 2012·Biopolymers·Zhe Wang, Gunnar F Schröder
Oct 24, 2012·Proceedings of the National Academy of Sciences of the United States of America·Kazuhiro AbeYoshinori Fujiyoshi
Nov 13, 2012·Nature Methods·Stanislav KalininClaus A M Seidel
Dec 27, 2012·Methods : a Companion to Methods in Enzymology·Ezgi Karaca, Alexandre M J J Bonvin
Jan 22, 2013·Nature Structural & Molecular Biology·Elka R GeorgievaOlga Boudker
Feb 23, 2013·Science·Andrew B WardIan A Wilson
Mar 21, 2013·The Journal of Physical Chemistry. B·Shahidul M IslamBenoît Roux
Apr 23, 2013·Nucleic Acids Research·Gökhan TolunJack D Griffith
May 2, 2013·Acta Crystallographica. Section D, Biological Crystallography·Ezgi Karaca, Alexandre M J J Bonvin
Jul 3, 2013·Structure·Matteo T Degiacomi, Matteo Dal Peraro
Jul 26, 2013·The Journal of Biological Chemistry·Ana CuervoJosé L Carrascosa
Aug 3, 2013·ELife·Mikhail KudryashevHenning Stahlberg
Aug 6, 2013·Nature Chemical Biology·Matteo T DegiacomiMatteo Dal Peraro

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Citations

Dec 8, 2015·Nature Reviews. Microbiology·Matteo Dal Peraro, F Gisou van der Goot
Jun 10, 2015·Current Opinion in Structural Biology·Claire Lesieur, Klaus Schulten
Jun 9, 2016·Briefings in Bioinformatics·Luciano A Abriata
Jun 23, 2016·Chemical Reviews·Sebastian KmiecikAndrzej Kolinski
Aug 21, 2019·Life Science Alliance·Giulia FontiMatteo Dal Peraro
Aug 4, 2019·International Journal of Molecular Sciences·Nidhi Singh, Wenjin Li
Mar 7, 2020·Journal of Chemical Information and Modeling·Luciano A Abriata, Matteo Dal Peraro

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