In the structural model of NcLPMO9C built using the crystal structure of NcLPMO9D (PDB 4EIR [ 44]), three asparagine residues exposed at the surface of NcLPMO9C were suggested to be involved in the interaction with oligosaccharides, constituting the +2 subsite [ 30].
A three-dimensional structural model of ANTR1 was constructed using the crystal structure of glycerol 3-phosphate/phosphate antiporter from E. coli as a template.
Robetta successfully created 5 potential structural models of the VACV G8R protein using the crystal structure of yeast PCNA (PDB 1SXJ) [53] as a template.
Using the crystal structure of the yeast proteasome, we modeled the structure of the human proteasome in complex with 1.
Using the crystal structure as a guide we designed hTIM1-hTIM4 chimeras and studied their binding to EBOV GP to map the location of the GP binding site.
The structure was determined by molecular replacement with the program PHASER (McCoy et al., 2007), using the crystal structure of B56γ1 (PDB: 2JAK) as a template.
According to this scenario, we constructed a model of CgPAD using the crystal structure of LpPAD (PDB code 2GC9) as the template.
Using the crystal structure of the 60S subunit as template (Ben-Shem et al., 2011), additional densities between the two 60S subunits can be segmented (Fig. 4B D).
A structure model for PLRV CP was designed by protein homology modeling, using the crystal structure of RYMV as a template.
A molecular model of Pfmrk designed using the crystal structure of human CDK7 highlights key amino acid substitutions in the ATP binding pocket.
A homology model of Shigella-CS with the flavin mononucleotide (FMN) binding was constructed using the crystal structure of CS from other species.
