CHESPA/CHESCA-SPARKY: automated NMR data analysis plugins for SPARKY to map protein allostery Academic Article uri icon

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abstract

  • Abstract Motivation Correlated Nuclear Magnetic Resonance (NMR) chemical shift changes identified through the CHEmical Shift Projection Analysis (CHESPA) and CHEmical Shift Covariance Analysis (CHESCA) reveal pathways of allosteric transitions in biological macromolecules. To address the need for an automated platform that implements CHESPA and CHESCA and integrates them with other NMR analysis software packages, we introduce here integrated plugins for NMRFAM-SPARKY that implement the seamless detection and visualization of allosteric networks. Availability and implementation CHESCA-SPARKY and CHESPA-SPARKY are available in the latest version of NMRFAM-SPARKY from the National Magnetic Resonance Facility at Madison (http://pine.nmrfam.wisc.edu/download_packages.html), the NMRbox Project (https://nmrbox.org) and to subscribers to the SBGrid (https://sbgrid.org). The assigned spectra involved in this study and tutorial videos using this dataset are available at https://sites.google.com/view/chescachespa-sparky. Supplementary information Supplementary data are available at Bioinformatics Online.

authors

  • Shao, Hongzhao
  • Boulton, Stephen
  • Olivieri, Cristina
  • Mohamed, Hebatallah
  • Akimoto, Madoka
  • Subrahmanian, Manu Veliparambil
  • Veglia, Gianluigi
  • Markley, John L
  • Melacini, Giuseppe
  • Lee, Woonghee

publication date

  • May 23, 2021