10.1371/journal.pone.0029948.g004 Aaron Alt Aaron Alt Laura Miguel-Romero Laura Miguel-Romero Jordi Donderis Jordi Donderis Mikel Aristorena Mikel Aristorena Francisco J. Blanco Francisco J. Blanco Adam Round Adam Round Vicente Rubio Vicente Rubio Carmelo Bernabeu Carmelo Bernabeu Alberto Marina Alberto Marina SAXS data analysis and rigid body modeling. Public Library of Science 2012 rigid 2012-02-08 01:35:55 Figure https://plos.figshare.com/articles/figure/_SAXS_data_analysis_and_rigid_body_modeling_/355755 <p>(A) The experimental SAXS profile of recombinant Endo<sub>338</sub>, measured at the ID14-3 BioSAXS beamline. The Kratky plot (inserted), displays a gaussian behavior, which indicates the well folded nature of the construct. (B) The distance distribution function, p(r) obtained from GNOM with a D<sub>max</sub> of 9.4 nm also suggests a compact structure. (C) The orphan domain model obtained from I-TASSER together with 5 Man<sub>5</sub>NAG<sub>2</sub> glycans, restricted by their attachment sites was fitted by rigid body modeling with SASREF, yielding a fit of the model (red line) against the experimental Endo<sub>338</sub> scattering profile (blue crosses) of χ<sup>2</sup> = 1.1. The input models used, are depicted above the fit curve. (D) The resulting model is displayed as a cartoon in three orthogonal views, with the attached sugars depicted as balls, fitted into the molecular envelope from DAMMIF.</p>