When accessing PepMapper online, Mapping is the default interface displayed. The input to PepMapper is the structure of a chosen antigen and the peptide library screened from the corresponding antibody. The user needs to specify both the identifier of an antigen in the PDB database through its PDB_ID and the identifier of the interacting chain through Chain No. The user then needs to specify at least one peptide in the box labeled as Mimotopes. The peptides should be grouped in the FASTA format or just in separated lines of sequences. At last, the user needs to provide a valid email address in the text box. By clicking Query, PepMapper begins processing and the results will be sent to the user through the email provided.