5A12

Crystal structure of Chlorite Dismutase from Magnetospirillum sp. in complex with azide

Summary for 5A12

• Entry DOI: 10.2210/pdb5a12/pdb
• Related: 5A13
• Descriptor: CHLORITE DISMUTASE, PROTOPORPHYRIN IX CONTAINING FE, AZIDE ION, ... (5 entities in total)
• Functional Keywords: oxidoreductase, chlorite, chloride, detoxification, heme, iron
• Biological source: MAGNETOSPIRILLUM SP.
• Total number of polymer chains: 5
• Total formula weight: 138062.61

Authors

Correia, H.D.,Santos-Silva, T. (deposition date: 2015-04-27, release date: 2015-09-02, Last modification date: 2024-01-10)

Primary citation

De Schutter, A.,Correia, H.,Freire, D.M.,Rivas, M.G.,Rizzi, A.C.,Santos-Silva, T.,Gonzalez, P.J.,Van Doorslaer, S.
Ligand Binding to Chlorite Dismutase from Magnetospirillum Sp.
J.Phys.Chem.B, 119:13859-, 2015

PubMed Abstract: Chlorite dismutase (Cld) catalyzes the reduction of chlorite to chloride and dioxygen. Here, the ligand binding to Cld of Magnetospirillum sp. (MaCld) is investigated with X-ray crystallography and electron paramagnetic resonance (EPR). EPR reveals a large heterogeneity in the structure of wild-type MaCld, showing a variety of low- and high-spin ferric heme forms. Addition of an axial ligand, such as azide or imidazole, removes this heterogeneity almost entirely. This is in line with the two high resolution crystal structures of MaCld obtained in the presence of azide and thiocyanate that show the coordination of the ligands to the heme iron. The crystal structure of the MaCld-azide complex reveals a single well-defined orientation of the azide molecule in the heme pocket. EPR shows, however, a pH-dependent heme structure, probably due to acid-base transitions of the surrounding amino-acid residues stabilizing azide. For the azide and imidazole complex of MaCld, the hyperfine and nuclear quadrupole interactions with the close-by (14)N and (1)H nuclei are determined using pulsed EPR. These values are compared to the corresponding data for the low-spin forms observed in the ferric wild-type MaCld and to existing EPR data on azide and imidazole complexes of other heme proteins.

PubMed: 26287794
DOI: 10.1021/ACS.JPCB.5B04141

Experimental method

X-RAY DIFFRACTION (1.4 Å)