SWISS-MODEL

[…] The Swiss Model server (http://swissmodel.expasy.org/) was used to generate models of the soluble domain of Pmp23 based on the structures of CwlT from C. difficile and S. aureus (PDB codes 4HPE and 4FDY, […]

[…] ich were described as hemocyanin (AlHc) and hemocyanin subunit 1 (AlHc1). Secondary structures of the two proteins were predicted by NetSurfP []. The presumed tertiary structure was established using SWISS-MODEL prediction algorithm (http://swissmodel.expasy.org/) and displayed by DeepView/Swiss-Pdb Viewer version 4.0.2. The two hemocyanin sequences were aligned with those downloaded from GenBank […]

[…] amino acids were removed for further analysis. MEME (version 4.12.0) was used to search for conserved motifs, and the number of motifs was set as 10 []. The protein structure was predicted using the Swiss-model database []. The interaction networks of A. thaliana BES1 genes were constructed using the STRING database (http://string-db.org). The RNA-seq data was used to analyse BES1 gene expression […]

[…] We used SWISS-MODEL for the homology modelling, constructing an atomic-resolution model of the target HA protein from its amino acid sequence [, ]. First, the primary sequence of the HA protein from the TW17 […]

[…] e regions involved in the interaction between holo-CjFur and the katA promoter region. We first modeled the holo-CjFur structure using the Helicobacter pylori Fur (2XIG) structure as the template and SWISS_MODEL software. Calculation of the holo-CjFur surface electrostatic potential (Fig. ) shows that several positively charged residues (Fig. ), including R20, K25, K28, R30, Y68 and R69, cluster i […]

[…] The three dimensional structures of the two domains of the CelStrep enzyme were determined by submitting the translated celstrep gene to SWISS-MODEL (http://expasy.org/). The crystal structure of the CelB2 1,4-β-glucanase from Streptomyces lividans PDB ID: 2NLR (sequence identity 84%), was used as a template for the molecular model of […]