Magnesium in PDB 9es9: Cryo-Em Structure of Spinacia Oleracea Cytochrome B6F Complex with Inhibitor Dbmib Bound at Plastoquinol Oxidation Site

All present enzymatic activity of Cryo-Em Structure of Spinacia Oleracea Cytochrome B6F Complex with Inhibitor Dbmib Bound at Plastoquinol Oxidation Site:
7.1.1.6;

The structure of Cryo-Em Structure of Spinacia Oleracea Cytochrome B6F Complex with Inhibitor Dbmib Bound at Plastoquinol Oxidation Site also contains other interesting chemical elements:

Bromine	(Br)	4 atoms
Iron	(Fe)	12 atoms

The binding sites of Magnesium atom in the Cryo-Em Structure of Spinacia Oleracea Cytochrome B6F Complex with Inhibitor Dbmib Bound at Plastoquinol Oxidation Site (pdb code 9es9). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Cryo-Em Structure of Spinacia Oleracea Cytochrome B6F Complex with Inhibitor Dbmib Bound at Plastoquinol Oxidation Site, PDB code: 9es9:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Cryo-Em Structure of Spinacia Oleracea Cytochrome B6F Complex with Inhibitor Dbmib Bound at Plastoquinol Oxidation Site


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of Spinacia Oleracea Cytochrome B6F Complex with Inhibitor Dbmib Bound at Plastoquinol Oxidation Site within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg201 b:92.6 occ:1.00 MG B:CLA201 0.0 92.6 1.0 NB B:CLA201 2.0 84.4 1.0 ND B:CLA201 2.0 86.2 1.0 NA B:CLA201 2.1 86.3 1.0 NC B:CLA201 2.1 90.4 1.0 O B:HOH309 2.5 54.4 1.0 C4D B:CLA201 2.9 80.9 1.0 C1B B:CLA201 3.0 78.0 1.0 C4A B:CLA201 3.1 80.4 1.0 C4B B:CLA201 3.1 78.5 1.0 C1C B:CLA201 3.1 84.1 1.0 C4C B:CLA201 3.1 82.0 1.0 C1D B:CLA201 3.2 79.5 1.0 C1A B:CLA201 3.2 79.8 1.0 CHB B:CLA201 3.4 72.6 1.0 CHC B:CLA201 3.4 78.2 1.0 CHA B:CLA201 3.5 81.5 1.0 CHD B:CLA201 3.5 81.0 1.0 C3D B:CLA201 4.3 76.7 1.0 C2B B:CLA201 4.3 75.8 1.0 C3B B:CLA201 4.3 81.4 1.0 C2C B:CLA201 4.3 79.0 1.0 C2D B:CLA201 4.4 77.5 1.0 C3C B:CLA201 4.4 82.7 1.0 C3A B:CLA201 4.4 77.4 1.0 C2A B:CLA201 4.5 74.7 1.0 CBD B:CLA201 4.9 80.4 1.0

Magnesium binding site 2 out of 2 in the Cryo-Em Structure of Spinacia Oleracea Cytochrome B6F Complex with Inhibitor Dbmib Bound at Plastoquinol Oxidation Site


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of Spinacia Oleracea Cytochrome B6F Complex with Inhibitor Dbmib Bound at Plastoquinol Oxidation Site within 5.0Å range: probe atom residue distance (Å) B Occ J:Mg201 b:92.6 occ:1.00 MG J:CLA201 0.0 92.6 1.0 NB J:CLA201 2.0 84.4 1.0 ND J:CLA201 2.0 86.2 1.0 NA J:CLA201 2.1 86.3 1.0 NC J:CLA201 2.1 90.4 1.0 O J:HOH309 2.5 54.1 1.0 C4D J:CLA201 2.9 80.9 1.0 C1B J:CLA201 3.0 78.0 1.0 C4A J:CLA201 3.1 80.4 1.0 C4B J:CLA201 3.1 78.5 1.0 C1C J:CLA201 3.1 84.1 1.0 C4C J:CLA201 3.1 82.0 1.0 C1D J:CLA201 3.2 79.5 1.0 C1A J:CLA201 3.2 79.8 1.0 CHB J:CLA201 3.4 72.6 1.0 CHC J:CLA201 3.4 78.2 1.0 CHA J:CLA201 3.5 81.5 1.0 CHD J:CLA201 3.5 81.0 1.0 C3D J:CLA201 4.3 76.7 1.0 C2B J:CLA201 4.3 75.8 1.0 C3B J:CLA201 4.3 81.4 1.0 C2C J:CLA201 4.3 79.0 1.0 C2D J:CLA201 4.4 77.5 1.0 C3C J:CLA201 4.4 82.7 1.0 C3A J:CLA201 4.4 77.4 1.0 C2A J:CLA201 4.5 74.7 1.0 CBD J:CLA201 4.9 80.4 1.0

S.Pintscher, R.Pietras, B.Mielecki, M.Szwalec, A.Wojcik-Augustyn, P.Indyka, M.Rawski, L.Koziej, M.Jaciuk, G.Wazny, S.Glatt, A.Osyczka. Molecular Basis of Plastoquinone Reduction in Plant Cytochrome B 6 F. Nat.Plants 2024.
ISSN: ESSN 2055-0278
PubMed: 39362993
DOI: 10.1038/S41477-024-01804-X