CABS-flex 2.0: a web server for fast simulations of flexibility of protein structures

Nucleic Acids Research
Aleksander KuriataSebastian Kmiecik

Abstract

Classical simulations of protein flexibility remain computationally expensive, especially for large proteins. A few years ago, we developed a fast method for predicting protein structure fluctuations that uses a single protein model as the input. The method has been made available as the CABS-flex web server and applied in numerous studies of protein structure-function relationships. Here, we present a major update of the CABS-flex web server to version 2.0. The new features include: extension of the method to significantly larger and multimeric proteins, customizable distance restraints and simulation parameters, contact maps and a new, enhanced web server interface. CABS-flex 2.0 is freely available at http://biocomp.chem.uw.edu.pl/CABSflex2.

References

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Citations

Mar 3, 2019·Bioinformatics·Aleksander KuriataSebastian Kmiecik
May 21, 2019·Nucleic Acids Research·Mangesh DamreAlejandro Giorgetti
May 3, 2019·Nucleic Acids Research·Aleksander KuriataSalvador Ventura
Nov 5, 2019·Protein Science : a Publication of the Protein Society·Mateusz KurcinskiSebastian Kmiecik
Aug 13, 2020·Bioinformatics and Biology Insights·Toluwase Hezekiah FatokiOlapade Samuel Akinlolu
Nov 2, 2019·Nature Communications·Navaneethan PalanisamyBarbara Di Ventura
Nov 14, 2018·The Analyst·Gergo Peter Szekeres, Janina Kneipp
Feb 3, 2019·International Journal of Molecular Sciences·Maciej Pawel CiemnySebastian Kmiecik
Aug 4, 2019·International Journal of Molecular Sciences·Nidhi Singh, Wenjin Li
Nov 9, 2018·International Journal of Molecular Sciences·Sebastian KmiecikAndrzej Kolinski
Nov 7, 2019·Bioinformatics and Biology Insights·Harriet U UgbokoJesupemi M Enibukun
Aug 14, 2018·Bioinformatics·Mateusz KurcinskiSebastian Kmiecik
Oct 10, 2020·Scientific Reports·Andrea Di NisioCarlo Foresta
Jul 9, 2020·Computational and Structural Biotechnology Journal·Jaime SantosSalvador Ventura
Sep 11, 2019·International Journal of Biological Macromolecules·Felipe de SalasSusana Camarero
Jan 11, 2021·Molecular Biotechnology·Dipanwita MaityAmitava Bandhu
Dec 19, 2020·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Alessandro MarchettoAlejandro Giorgetti
Feb 12, 2021·International Journal of Molecular Sciences·Bruno O VilloutreixAbdel-Majid Khatib
Mar 6, 2021·Current Opinion in Structural Biology·Sérgio M MarquesJiri Damborsky
Mar 30, 2021·Chemical Physics Letters·Adnan Cetin
Feb 23, 2020·Current Opinion in Structural Biology·Jessica S EboDavid J Brockwell
May 4, 2021·International Journal of Peptide Research and Therapeutics·Amir AtapourGholamreza Hatam
Jun 18, 2021·Biochimica Et Biophysica Acta. Biomembranes·Stefanie WegeMaria Hrmova
Jun 15, 2021·ACS Omega·Navaneethan PalanisamyBarbara Di Ventura
Jul 14, 2021·Biochemical and Biophysical Research Communications·Vijay Kumar
Jul 25, 2021·International Journal of Molecular Sciences·Mateusz KurcinskiAndrzej Kolinski
Jul 9, 2021·Computational and Structural Biotechnology Journal·Christopher A BeaudoinTom L Blundell
Jul 30, 2021·International Journal of Biological Macromolecules·Chandrima ModakAwanish Kumar
Aug 13, 2021·Bioinformatics·Dominik SchwarzCharlotte M Deane

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