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The structural quality assessment of the final models was performed using the Protein Structure Validation Suite, as described above.
Moreover, the PDB Validation software, also used by PDB for 3D structural quality assessment, assigned an average value of 0.02 Å and 3.325° for the bond lengths and bond angles, respectively, within each of the WT models.
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One such property, which is rarely used for automatic structure quality assessment, is the tendency for conserved residues to be located at the structural core and for variable residues to be located at the surface.
The observational checklists for structural and process quality assessment, as well as the checklists for patient file review provided detailed quantitative results.
However, most structural similarity-based image quality assessment (IQA) methods focus on spatial contrast without fully considering the spatial structural distribution.
In this paper a modified version of it, based on the Structural Similarity (SSIM) image quality assessment is proposed.
Following the widely-used structural similarity concept in 2D image quality assessment, Lavouè [26] proposes a local mesh structural distortion measure called MSDM which uses curvature for structural information.
Engelke et al. proposed a region-selective objective image quality metric [34] which is able to be combined with normalized hybrid image quality metric, reduced-reference image quality assessment technique, Structural SIMilarity (SSIM) [35], or PSNR measures.
The internal consistency of an instrument is thus reflected in the quality assessment of structural validity, and vice versa.
After performing stereo-chemical quality assessment and structural refinement, three models with the best objective functions, out of the five, were chosen and one model with the lowest current energy amongst these three was subsequently selected for structural analysis.
To further examine the relationship between the PY proteins and viral capsid protein known to adopt the DJR fold, we used structural modeling followed by the quality assessment of the resultant model.
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