Comparison of oligosaccharide binding sites of LPyV and SV40.

A & C. LPyV VP1 in complex with 3SL. B & D. SV40 VP1 in complex with GM1 pdb (3BWR). In panels A and B, the proteins are shown in surface representation, with the BC- and HI-loops also indicated in cartoon representation. Residues contributing to ligand binding or specificity are shown in stick representation. Receptor-binding residues that are identical between the two proteins are colored yellow in both panels, while residues that differ between the two proteins, but reside on the same location on the VP1 surface, are colored bright green for LPyV and cyan for SV40. Residues that make additional contacts with the oligosaccharide only in one complex are colored dark green for LPyV and dark blue for SV40. Their non-binding counterparts in the other complex are colored white. The carbohydrate ligands are shown as orange sticks. Hydrogen bonds and water-mediated hydrogen bonds are shown as black and grey dashes, respectively. In panels C and D, the proteins are shown in ribbon presentation, with one monomer highlighted in green for LPyV and blue for SV40 VP1, respectively.