Figure 5

Homology models of Pf-GyrB and Tg-GyrB by I-TASSER. (A) Alignment of Pf-GyrB with topoisomerase IV complexed with DNA (pdb 4I3YH [63]). One monomer of the topo IV dimer is shown in dark grey, the other in cyan. One monomer of the Pf-GyrB is colored light grey, the other is colored as follows (numbering includes the signal and translocation peptide) residues 148–340 (roughly equivalent to GHKL domain), purple, residues 704–875 (roughly equivalent to the transducer domain, green) residues 910–1195 (roughly equivalent to TOPRIM and C-terminal tail), yellow. Unassigned sequence is shown in red. DNA bound to the DNA cleavage region is shown in stick format. Other DNA is removed for clarity. Bracketed loop is a Plasmodium specific insert. (B) Alignment of Tg-GyrB with Topoisomerase IV complex with DNA (pdb 4I3YH [63]). Coloring is as follows: Residues 291–876 (roughly equivalent to GHKL and transducer domains), purple, residues 910–1258 (roughly equivalent to TOPRIM and C-terminal tail), yellow. Unassigned sequence is shown in red. DNA bound to the DNA cleavage region is shown in stick format. Other DNA is removed for clarity. For each presentation, an alternative view rotated horizontally by 90° is shown on right hand side.