Evolution of Host-Virus protein-protein interactions

The interactions between host and viral proteins can determine the outcome of viral infection as well as virus ability to transfer to new host species, but the forces that shape the evolution of the host-virus interactome are not well understood. Here, we present a comprehensive analysis of host-virus domain-motif interactions, where viruses mimic host-like peptide motifs to interact with host domains and subvert important host machineries.

Main table

• Table 1 - Positively selected viral-binding human proteins partitioned to two separate functional classes

Supplementary tables

• Table S1 - Dataset assembly and protein classification
• Table S2 - Data structure and assembly
  • A - Occurrence of PRDs in different species
  • B - Ortholog assembly
• Table S3 - GO term enrichment analysis.
  • A - GOrilla enrichment of Viral-binding PRDs vs PRDs
  • B - GOrilla enrichment of Viral-binding PRDs vs Viral-binding non-PRDs
  • C - gProfiler enrichment of Viral-binding non-PRDs positively selected genes
• Table S4 - Host receptor dataset

Command Lines

• List of command lines for various stages of the protein evolutionary rate analysis

Material datasets

• Concatenated MSA_amino_acid_Rate4site.rar
• Evolutionary_rates-Rate4site.rar
• Evolutionary_rates-dN_dS.rar
• Genes_evolutionary_analysis.tsv
• MSA_CDS_Prank_mask_guidance-dN_dS.rar
• MSA_amino_acid_MAFFT-Rate4site.rar
• Newick tree format - Concatenated MSA - Rate4site

Publication

• Shuler, Gal, and Tzachi Hagai. "Rapidly evolving viral motifs mostly target biophysically constrained binding pockets of host proteins." Cell Reports 40.7 (2022): 111212.
• https://doi.org/10.1016/j.celrep.2022.111212