The 7 records as shown in the table above correspond to 7 DMPs (Domain Mimicry Pairs) where a pathogen protein (Column A) and a host interactor protein (Column F) that interact with a common target host protein (Column D) share a similar domain (Column H) having a unique PSSM ID (Column G). DMPs are indicative of domain mediated molecular mimicry between pathogen and host proteins.
In certain queries, the PSSM IDs may be repeated in the results. In those cases, either the interacting proteins or interaction methods will be different. Thus, the information is being output as a unique row of the results table.
The 7 records correspond to 7 unique DMPs for the pathogen protein “Q5NEB0”.
The explanation for each column for the 7 DMPs as observed in the results table is as follows:
Column A: Pathogen Protein ID: One pathogen protein that can have multiple conserved domains, interacting with one host protein.
Column B: Pathogen Name: One source organism i.e., Francisella tularensis subsp. tularensis (strain SCHU S4)
Column C: Interaction Detection Method: Only one method has been reported for this search, namely two hybrid pooling approach. This column is important as different interaction detection methods have different reliability while multiple detection methods showing the same PPI may be more reliable.
Column D: Host Protein ID: For this search, there is only one host protein that directly interacts with the pathogen protein and provides a binding site to the mimicking host Interactor protein (Column F) and pathogen protein (Column A).
Column E: PubMed ID: This column corresponds to the PubMed ID of the publication where the PPI between the pathogen protein (column A) and host protein (column D) is reported.
Column F: Host Interactor Protein ID: These are the first interactors of the host proteins mentioned in Column D. For this search, there is only one first host interactor protein, that may contain multiple domains.
Column G: Matched Domain PSSM ID: The unique PSSM IDs for this search are 7 in number. As per the NCBI website, a position-specific scoring matrix (PSSM) is calculated from a multiple sequence alignment and has a unique PSSM ID. The PSSM and its ID for a domain may change due to changes in its multiple sequence alignment as new sequence data becomes available.
Column H: Domain Short Name: This is the name of the domain (corresponding to the unique PSSM ID) being matched between the pathogen and host interactor proteins. 7 such unique domains have been identified. This record may correspond to a conserved domain, a COG, a domain superfamily, or Pfam ID.