ESyPred3D

[…] not been resolved experimentally, we used a virtual structural model based on its homology with human akt1 protein, previously reported in the protein data bank (pdb). the model was built using the esypred3d web server 1.0 program []. the structure of the akt inhibitor x was obtained from zinc database [] in mol2 format. to improve the modeling of the putative interaction between protein […]

[…] by the p.g155d mutation is highly conserved between primate mammal species (figure ). the three dimensional structure of the cabp4 protein with the novel missense mutation was modeled using the esypred3d web server (figure ). the c.464g>a substitution replaces a glycine residue with an aspartic acid residue, additionally containing an acidic side chain, at position 155, which is within […]

[…] correlations and conservation were calculated using pfstats as described previously []., molecular modeling of rtg2p was performed in five independent servers, robetta [], swiss-model [], phyre2 [], esypred3d [] and i-tasser [] using default settings. the models obtained were validated by analysis of the ramachandran diagram () and through verify3d program () []. the best model showed 90.2% […]

[…] mapkkk family, and play a critical role in regulating osteoclast differentiation and bone formation., we have chosen tak1 as a template to build three-dimensional structures of human lrrk1 using the esypred3d automated homology modeling program (swiss institute of bioinformatics, switzerland) because mice with disruption of tak1 also show an osteopetrosis phenotype., sequence analyses […]

[…] homology modeling was employed to predict three-dimensional (3d) structures of daoa by satisfying spatial restraints. threading approach (swiss model [], i-tasser [], mod-web [], 3d-jigsaw [], and esypred3d []) were also employed for structure prediction. the 3d structures for daoa isoforms were visualized on ucsf chimera 1.10. the predicted structures of daoa isoforms were minimized by amber […]

[…] was calculated using emboss needle []., structural modelling of the malaria proteins was conducted with the online servers of the swiss model workspace automatic modelling mode [], phyre2 [] and esypred3d web server 1.0 []. the following crystal and solution structures were used: the xenopus laevis mdm2 swib/mdm2 domain [pdb id: 1ycq chain a] [], the mus musculus swi/snf-related, […]