Molecular Mimicry Finder

Service to find proteins with a molecular mimicry potential in a host-pathogen system. This pipeline is based in BLAST searches, using host, pathogen and no pathogen (for the host) organisms proteomes, to detect sequences with high similarity between the host and pathogen.

UniProt ID. E.g. UP000011115
For the search based on the Host
UniProt ID. E.g. UP000050741
For the search based on the Pathogen
Set of 5-15 organisms phylogenetically related to the pathogen but with a different lifestyle (10 proteomes is recommended). Put a UniProt ID code per line. Ej. UP000050794 UP000050602 UP000095285 UP000005239 UP000252519
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Last updated: March 5, 2021

The pipeline calculation will take some hours. You will receive the following files:

  • List of candidates detected by SBP (pathogen-candidates). In this document the Query column has the pathogen proteins (mimicry candidates) and *best column has the host most similar proteins (imitated candidates). Best column has the most similar protein in the list of proteomes provided. The bitscore difference between *best and best is also provided (difference column). Proteins with a positive bitscore difference and results only found in host are presented in this file.
  • List of candidates detected by SBH (host-candidates). In this document the Query column has the host proteins (imitated candidates) and *best column has the pathogen most similar proteins (mimicry candidates). Best column has the most similar proteins in the list of proteomes provided. The bitscore difference between *best and best is also provided (difference column). Proteins with a positive bitscore difference and results only found in host are presented in this file. 
  • The best results of SBP (pathogen_search_best.tsv). Only outliers from the search based on the pathogen (SBP), using the interquartile range multiplied by the factor. This document includes the subcellular annotation for the imitated (host), imitating (pathogen) candidates. If the interquartile factor is cero, the same candidates of the pathogen-candidates file will be presented. As higher the factor fewer candidates will be printed.
  • The best results of SBH (host_search_best.tsv). Only outliers from the search based on the host (SBH), using the interquartile range multiplied by the factor. This document includes the subcellular annotation for the imitated (host), imitating (pathogen) candidates. If the interquartile factor is cero, the same candidates of the host-candidates file will be presented. As higher the factor fewer candidates will be printed.

For technical information about the algorithm, you can refer to:

Armijos-Jaramillo, V., Espinosa, N., Vizcaíno, K., & Santander-Gordón, D. (2021). A Novel In Silico Method for Molecular Mimicry Detection Finds a Formin with the Potential to Manipulate the Maize Cell Cytoskeleton. Molecular Plant-Microbe Interactions: MPMI, 34(7), 815–825. https://doi.org/10.1094/MPMI-11-20-0332-R