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Figure 3
(a) An electron-density map (cyan) contoured at 1.8σ for the active site of MITS9220_PhnD1, outlining the interactions between phosphate and MITS9220_PhnD1 residues for the RT structure (magenta, PDB entry 7zck) and the cryo-structure (pink orange, PDB entry 7s6g). The interactions between the side chains and phosphate are shown as black dashed lines. The single buried water is shown as a red sphere. (b) An electron-density map (cyan) contoured at 1.3σ for the heme coordination in TTCP RT structure. The heme and surrounding residues are shown as stick models. The coordination bond is shown as a black dashed line. (c) A B-factor putty representation of the RT (red) and cryo (blue, PDB entry 8bs8) AbD08 structures. The inset view is shown in (d), where the largest difference (with a distance of 3.5 Å) was at one of the loops of the VL domain of the AbD08 structures, protruding into space between the four IG domains.

IUCrJ
Volume 10| Part 4| July 2023| Pages 420-429
ISSN: 2052-2525
https://doi.org/10.1107/S2052252523003810