Carter JD, Mathias JD, Gomez EF, Ran Y, Xu F, Galiano L, Tran NQ, D'Amore PW, Wright CS, Chakravorty DK, Fanucci GE. Characterizing solution surface loop conformational flexibility of the GM2 activator protein.
J Phys Chem B 2014;
118:10607-17. [PMID:
25127419 PMCID:
PMC4161144 DOI:
10.1021/jp505938t]
[Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
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GM2AP
has a β-cup topology with numerous X-ray structures
showing multiple conformations for some of the surface loops, revealing
conformational flexibility that may be related to function, where
function is defined as either membrane binding associated with ligand
binding and extraction or interaction with other proteins. Here, site-directed
spin labeling (SDSL) electron paramagnetic resonance (EPR) spectroscopy
and molecular dynamic (MD) simulations are used to characterize the
mobility and conformational flexibility of various structural regions
of GM2AP. A series of 10 single cysteine amino acid substitutions
were generated, and the constructs were chemically modified with the
methanethiosulfonate spin label. Continuous wave (CW) EPR line shapes
were obtained and subsequently simulated using the microscopic order
macroscopic disorder (MOMD) program. Line shapes for sites that have
multiple conformations in the X-ray structures required two spectral
components, whereas spectra of the remaining sites were adequately
fit with single-component parameters. For spin labeled sites L126C
and I66C, spectra were acquired as a function of temperature, and
simulations provided for the determination of thermodynamic parameters
associated with conformational change. Binding to GM2 ligand did not
alter the conformational flexibility of the loops, as evaluated by
EPR and NMR spectroscopies. These results confirm that the conformational
flexibility observed in the surface loops of GM2AP crystals is present
in solution and that the exchange is slow on the EPR time scale (>ns).
Furthermore, MD simulation results are presented and agree well with
the conformational heterogeneity revealed by SDSL.
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