Matrix describing individual features used in phylogenetic analysis of vRdPs.

Individual vRdP structures are introduced by PBD code-strain and they are assigned to a virus species. Rows in the matrix represent vRdPs, while the compared features are listed as 21 columns. Compared features are: (A) polymerase product - 0 RNA, 1 DNA; (B) polymerase template - 0 RNA, 1 both DNA and RNA; (C) NA synthesis initiation - 0 de novo, 1 protein primer, 2 RNA primer; (D) overall polymerase domain architecture as described in [23] - 0 active site is encircled by finger tips, 1 active site is open (fingers subdomain do not touch thumb subdomain); (E) polymerase core organization - 0 ABC, 1 CAB; (F) motif F length - 0 normal (motif is F2 is present), 1 short (motif F2 is absent), 2 long (insertion is present in motif F); (G) motif F structure - 0 ββα(310)β, 1 βββ, 2 ββ; (H) F - A (C) motif connection - 0 short (≤35 amino acid residues), 1 long structured (>35 amino acid residues); (I) motif A structure - 0 -310, 1 βα, 2 β310; (J) A–B motif connection - 0 ααββ, 1 αββαββ, 2 ββ; (K) length of helix in motif B - 0 normal (≤21 amino acid residues), 1 long (>22 amino acid residues); (L) kink in motif B - 0 absent, 1 present; (M) B - C (D) motifs connection - 0 very short (≤5 amino acid residues), 1 loop (6–14 amino acid residues), 2 long helical (≥15 amino acid residues, at least 8 amino acid residues long helix); (N) motif C length - 0 short (10 amino acid residues), 1 long (>10 amino acid residues); (O) C (B)–D motifs connection - 0 short loop (≤5 amino acid residues), 1 long loop (>5 amino acid residues); (P) motif D structure - 310α-, 1 α-, 2αβ; (Q) position of helix in motif D - 0 normal position, 1 shifted position; (R) D–E motif connection - 0 short (180 amino acid residues), 1 small (10, and L mean α helix, β strand, 310 helix, and loop, respectively.