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Journal of Biomolecular NMR

, Volume 63, Issue 1, pp 59–65 | Cite as

Backbone structure of Yersinia pestis Ail determined in micelles by NMR-restrained simulated annealing with implicit membrane solvation

  • Francesca M. Marassi
  • Yi Ding
  • Charles D. Schwieters
  • Ye Tian
  • Yong Yao
Article

Abstract

The outer membrane protein Ail (attachment invasion locus) is a virulence factor of Yersinia pestis that mediates cell invasion, cell attachment and complement resistance. Here we describe its three-dimensional backbone structure determined in decyl-phosphocholine (DePC) micelles by NMR spectroscopy. The NMR structure was calculated using the membrane function of the implicit solvation potential, eefxPot, which we have developed to facilitate NMR structure calculations in a physically realistic environment. We show that the eefxPot force field guides the protein towards its native fold. The resulting structures provide information about the membrane-embedded global position of Ail, and have higher accuracy, higher precision and improved conformational properties, compared to the structures calculated with the standard repulsive potential.

Keywords

Ail Yersinia pestis Membrane protein Structure NMR Implicit solvation 

Notes

Acknowledgments

This research was supported by grants from the National Institutes of Health (NIH: R01GM110658, R01GM100265, P41EB002031, P30CA030199). CDS was supported by funds from the NIH Intramural Research Program of The Center for Information Technology.

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Copyright information

© Springer Science+Business Media Dordrecht 2015

Authors and Affiliations

  • Francesca M. Marassi
    • 1
  • Yi Ding
    • 1
  • Charles D. Schwieters
    • 2
  • Ye Tian
    • 1
  • Yong Yao
    • 1
  1. 1.Sanford-Burnham Medical Research InstituteLa JollaUSA
  2. 2.Division of Computational Bioscience, Center for Information TechnologyNational Institutes of HealthBethesdaUSA

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