Fig. 5: Identification of previously undescribed phage proteins.

A, B CDS plot for ϕKZ and ϕPA3. Forward CDS are colored in green, while reverse CDS are represented in purple. Identified novel proteins are highlighted in the histogram (inner circle). C Scatterplot of protein length vs. percentage of sequence coverage in the SEC-MS experiments. The dot size represents the number of proteotypic peptides identified. D Distribution of the identifications (defined as a number of independent MS detections using a 1% peptide spectrum matching FDR) for the novel ϕKZ and ϕPA3 proteins. E Boxplot showing the Pearson correlation between the two replicates (n = 72). Each novel protein is represented as a dot. The box boundaries show the interquartile range (IQR) and its whiskers 1.5× IQR. Black lines represent the mean. F Heatmap representing the elution profile for all the novel ORFs. The x-axis represents the fraction number, while the cell color shows the unit-rescaled intensity. The solid red line represents the expected monomeric fraction. G Coelution profile for predicted nvRNAp in ϕPA3. H Superimposition of reported structure for the ϕKZ nvRNAp (stick, gray) and predicted structure for the ϕPA3 nvRNAp (ribbons). Chains are colored by their distance to the ϕKZ nvRNAp structure after superimposition.