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PROCHECK output of Ramachandran plot showed 95.9% residues in the allowed confirmation (87.8% residues in allowed regions and 8.1% residues in partially allowed regions).
Inspection of the Ramachandran plot revealed that 96.81% of the residues are in the allowed regions.
Inspection of the Ramachandran plot revealed that 97.53% of the residues are in allowed regions.
The Ramachandran plot showed 97.7% of the amino acid residues in allowed regions with ERRAT score of 86.05.
This trade-off can be incorporated in the PFC scheme by defining certain allowed regions for combinations of response delays and ramping rates.
All the generated models had more than 97 % of the residues in the favourable regions of the Ramachandran plot and the rest in the allowed regions.
0.47 ± 0.032 0.47 ± 0.053 Structure analysis Residues in most favored regions 82.5 84.9 Residues in additionally allowed regions 17.3 9.8 Residues in generously allowed regions 0.3 5.3 Residues in disallowed regions 0 0. In the structure of the PHD1KDM5B-H3K4me0 complex, the H3 peptide binds to the surface of the PHD1KDM5B as an anti-parallel β-sheet (residues 2 3 aa).
Ramachandran plot (Additional file 2: Figure S2) showed that 90.3% of residues in the LhSorP5CS model were in the most favored regions, 8.7% in the additional allowed regions, 0. 5% in the generously allowed regions; while only 0.5% of residues were in the disallowed regions.
This allowed regions of similarity or divergence to be visualised.
The remaining 5.8% are found within the allowed regions.
Analysis of the structures by PROCHECK_NMR showed that more than 80.8% of non-Pro, non-Gly residues lie in the most favored regions, 16.2% in additionally allowed regions, and 3.0% in generally allowed regions of the Ramachandran plot (Fig. S3).
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Justyna Jupowicz-Kozak
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