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Each protein sequence was modelled using swissmodel at http://swissmodel.expasy.org/workspace/index.php.org/workspace/index.php
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Representatives from each of four groups (eukaryotes, archaea, bacteria, and Chloroflexi) were modeled using Swissmodel and superimposed to identify aligning active site residues (Table 4).
Since the results were substantially worse for the remaining plant sequences, we chose Phypa7 for model construction using SwissModel, based on an alignment of templates found by the Phyre algorithm.
For structural modeling the sequences of both the L. donovani RuvBs were used for the prediction of 3-dimensional structure of these proteins using Swissmodel homology-modeling server (http://swissmodel.expasy.org/).org/
(D ) Gallery of structures of several model organisms, obtained by homology modeling on the yeast structure templates using swissmodel.expasy.org.org
Models of mutant proteins were constructed using SwissModel (http://swissmodel.expasy.org/) and superimposed with Swiss-Pdb Viewer Magic fit tool.
As human Gαi and Drosophila Gαo sequences share 71% identical residues, modelling of Gαo could be performed using SwissModel [ 11].
The tertiary structure of the glycosylase domain of HvDME and AtDME, respectively, was predicted using Swissmodel and found to be very much alike except for a beta-strand loop in the HvDME, not predicted for the AtDME protein.
In this study, survival was directly modelled using classification models to optimise prediction accuracy.
Costs and QALYs were modelled using generalized linear models whilst MACE was modelled using logistic regression.
CD4 cell count at viral set-point was modelled using linear regression models.
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