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We designed 135,000 artificial sequences for a repertoire of backbone models representing all theoretically possible axial rotation states.
Aided by the 3.96 Å density map of CI, we were able to accurately assign all the 14 core subunits together with 20 supernumerary subunits, and build 17 additional backbone models into the unoccupied density.
Rosetta assembles these fragments into full-sized protein backbone models using various energy terms and filters.
Next we show the potential of MOTIF-EM to build Cα backbone models for cryoEM maps in special cases.
The improved model selection can be attributed to the improved side-chain quality, which enables the MQAP to rescue good backbone models with poor side-chain packing.
It also highlights the need to include side-chain sampling into the MQAP procedure to avoid losing good backbone models suffering from poor side-chain packing.
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Greater accuracy of the flexible backbone model results from both increases and decreases in side-chain flexibility relative to the fixed-backbone model.
Results are obtained for a segmented, flexible backbone model of a typical naval frigate.
As such, this study focuses on using a multivariate data analysis techniques, to develop a RMSW load-displacement (backbone) model.
A backbone model of a 10-subunit yeast RNA polymerase II has been derived from x-ray diffraction data extending to 3 angstroms resolution.
We show that such a gradient elasticity backbone model can be combined with any standard nonlinear constitutive driver to render a regularised model for softening inelasticity.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com