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. 1999 Sep 23;64(1):43–59. doi: 10.1016/S0168-1702(99)00078-7

Fig. 3.

Fig. 3

Alignment of VEE virus C-terminal nsP3 domain sequences (single letter code) from the residue corresponding to TRD virus nsP3 V-331 to the putative nsP3/nsP4 proteinase cleavage site. A dash indicates a gap introduced to improve alignment. Asterisk indicates nsP3 opal stop codon. Strains with >80% nsP3 amino acid sequence identity to strain(s) selected for alignment are omitted. Consensus sequence (CONS) includes residues conserved in at least 7 of the 9 strains selected for alignment, with boxed residues conserved by all sequenced VEE virus strains. Domains 1–4 are as designated by Oberste et al. (1996). The direct repeats present in the various strains are indicated on the right, with lines drawn to the downstream copy of the direct repeat in the alignment (underlined) the upstream copy of the direct repeat is omitted from the alignment. Degenerate, repetitive portions of 78V-3531 virus and AG80-663 virus C-terminal nsP3 domain sequences excluded from the alignment (flanked by tildes) are given on the lower right. For strain abbreviations, see Table 1. IABCDII=Present in all VEE virus subtype IAB, IC, ID, and II strains. IE=present in all subtype IE strains.