Figure 2

Amino Acid Sequence Alignment of the VP2 and VP3 C-terminus from representative viruses of the Polyomaviridae Family. Alignment of the amino acid sequence of the VP2/VP3 C-terminus was constructed using ClustalW2 from reference sequences of 17 different members of the Polyomaviridae family. BKV, JCV, SV40 and SA12 sequences were compared and residues that are conserved between at least three out of these four closely related members of the Polyomaviridae family are indicated in bold. The alpha-helix region of the BKV VP2/VP3 gene is shown in red. The location of the primers (underlined) and the probe (boxed) are indicated. The region in the BKV VP2/VP3 gene having two reading frames due to the overlap with the N-terminus of the VP1 gene is indicated in blue. The NLS and DNA binding region are located downstream of the alpha helix sequence. Residues are numbered according to the reference sequence for the BKV VP2 gene (YP_717937.1).