Space Constrained Homology Modelling: The Paradigm of the RNA-Dependent RNA Polymerase of Dengue (Type II) Virus

<table>3D model of the Dengue RNA-dependent RNA polymerase produced by conventional homology modelling. This model exhibits only few secondary structure elements. Backbone clashes between the model and an ssRNA fragment (depicted in green sticks) copied from the HCV template structure indicate that the conventional homology modelling approach failed to model the ssRNA channel correctly. This figure demonstrates that conventional homology modelling of the Dengue polymerase was unsuccessful.</table>

Computational and Mathematical Methods in Medicine

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Figure 2

Figure 2: Space Constrained Homology Modelling: The Paradigm of the RNA-Dependent RNA Polymerase of Dengue (Type II) Virus 