Exact(11)
In the shape complementarity evaluation, the surface contact between proteins represented by the grid points is evaluated by using the score function of the contact surface area.
Step 1 (Shape complementarity evaluation): A shape complementarity evaluation of protein pairs is performed.
Next, the shape complementarity evaluation is undertaken for all rotated bodies.
Figure 2 shows the results of the shape complementarity evaluation for about 20 × 20 protein pairs.
An evaluation of the affinity was difficult when only the PSC score based on the shape complementarity evaluation was considered.
Based on these docking results (Table 2), the shape complementarity evaluation is sufficiently reliable for affinity analysis.
Similar(49)
As mentioned in Evaluation of shape complementarity, an original docking simulation code is included in our AEP system.
For specific cases, we have pursued rigorous evaluation in terms of surface complementarity, electrostatic complementarity, and interaction energy at the interface regions to support the credibility of the predictions made.
Even the affinity evaluation was derived from a shape complementarity search, because in practice, the affinity analysis revealed that a shape complementarity search can identify a pair with such a docking type in a sophisticated manner from 400 protein pair candidates.
In addition, we applied purpose-built sophisticated computational tools for an in-depth evaluation of clustering of TCRβ (TCRB) complementarity determining region 3 (CDR3) amino-acid LGL clonotypes.
The complementarity between the two projects justified a joint evaluation, although the analysis also looked at the specific characteristics of each project in terms of implementing agency, age target, strategy and approach.
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