WUPSIVUS is a web tool to map genomic variations from GRCh37/hg19 reference genome onto amino acids in three-dimensional structures in the Protein Data Bank (PDB). It can handle a batch of variations, among which those that could be mapped to at least one PDB structure are selected and displayed in the result table. Summary statistics about detailed structural features, such as secondary structure, residue burial and interaction with other proteins and ligands including DNA, RNA, ions etc., are provided for the mapped variations so that the users can interpret the impact of variations on protein stability and function and focus on those variations that are likely to have significant impacts. The result table is linked to the web page for each variation, which lists all of the mapped amino acids in the PDB with detailed atomic interactions and enables to view the amino acid position in protein structure with a MolMil browser.