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Figure 3
Structural comparisons of SaTatD and its homologs. (a) Superimposed views of the monomers of SaTatD and its homologs identified by the DALI server: TatD-like DNase from S. aureus (strain MW2) (green; PDB entry 2gzx), TatD-like DNase from T. maritima (salmon; PDB entry 1j6o), the TatD–DNA complex from E. coli (red; PDB entry 4pe8), YcfH from E. coli (yellow; PDB entry 1yix) and YjjV from E. coli (lime; PDB entry 1zzm). All metals and ligands are shown as spheres and in ball-and-stick representation, respectively. The Ni2+ ion in PDB entry 2gzx and the Zn2+ ion in YcfH and YjjV are colored marine and orange, respectively. The C atoms of DNA (in PDB entry 4pe8) and the PEG ligand (in PDB entry 1zzm) are presented in ball-and-stick representation in black. (b) Multiple sequence alignment of homologs was performed using ClustalW and ESPript. The conserved residues and similar residues are presented in white on a red background and in red in blue boxes, respectively. The residues contributing to metal binding and catalysis are marked with green circles and blue stars, respectively.

IUCrJ
Volume 7| Part 3| May 2020| Pages 509-521
ISSN: 2052-2525
https://doi.org/10.1107/S2052252520003917