Iron in PDB 8qqk: Cryo-Em Structure of E. Coli Cytochrome BO3 Quinol Oxidase Assembled in Peptidiscs

All present enzymatic activity of Cryo-Em Structure of E. Coli Cytochrome BO3 Quinol Oxidase Assembled in Peptidiscs:
7.1.1.3;

The structure of Cryo-Em Structure of E. Coli Cytochrome BO3 Quinol Oxidase Assembled in Peptidiscs also contains other interesting chemical elements:

Copper

(Cu)

1 atom

The binding sites of Iron atom in the Cryo-Em Structure of E. Coli Cytochrome BO3 Quinol Oxidase Assembled in Peptidiscs (pdb code 8qqk). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 2 binding sites of Iron where determined in the Cryo-Em Structure of E. Coli Cytochrome BO3 Quinol Oxidase Assembled in Peptidiscs, PDB code: 8qqk:
Jump to Iron binding site number: 1; 2;

Iron binding site 1 out of 2 in the Cryo-Em Structure of E. Coli Cytochrome BO3 Quinol Oxidase Assembled in Peptidiscs


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Cryo-Em Structure of E. Coli Cytochrome BO3 Quinol Oxidase Assembled in Peptidiscs within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe705 b:49.1 occ:1.00 FE A:HEM705 0.0 49.1 1.0 ND A:HEM705 1.9 49.1 1.0 NA A:HEM705 2.0 49.1 1.0 NC A:HEM705 2.1 49.1 1.0 NB A:HEM705 2.1 49.1 1.0 NE2 A:HIS421 2.4 48.7 1.0 C4D A:HEM705 2.8 49.1 1.0 C1D A:HEM705 2.9 49.1 1.0 NE2 A:HIS106 2.9 49.8 1.0 C1A A:HEM705 2.9 49.1 1.0 C4A A:HEM705 3.0 49.1 1.0 C4C A:HEM705 3.1 49.1 1.0 C4B A:HEM705 3.1 49.1 1.0 C1B A:HEM705 3.1 49.1 1.0 C1C A:HEM705 3.1 49.1 1.0 CD2 A:HIS421 3.3 48.7 1.0 CHA A:HEM705 3.3 49.1 1.0 CE1 A:HIS421 3.3 48.7 1.0 CHD A:HEM705 3.4 49.1 1.0 CHB A:HEM705 3.5 49.1 1.0 CHC A:HEM705 3.5 49.1 1.0 CD2 A:HIS106 3.7 49.8 1.0 CE1 A:HIS106 3.9 49.8 1.0 C3D A:HEM705 4.1 49.1 1.0 C2D A:HEM705 4.1 49.1 1.0 C2A A:HEM705 4.2 49.1 1.0 C3A A:HEM705 4.2 49.1 1.0 C3C A:HEM705 4.3 49.1 1.0 C2C A:HEM705 4.3 49.1 1.0 C2B A:HEM705 4.3 49.1 1.0 C3B A:HEM705 4.3 49.1 1.0 CG A:HIS421 4.4 48.7 1.0 ND1 A:HIS421 4.4 48.7 1.0 CG A:MET110 4.8 49.6 1.0 CG A:HIS106 4.9 49.8 1.0 CE1 A:PHE420 4.9 49.0 1.0 ND1 A:HIS106 5.0 49.8 1.0

Iron binding site 2 out of 2 in the Cryo-Em Structure of E. Coli Cytochrome BO3 Quinol Oxidase Assembled in Peptidiscs


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Cryo-Em Structure of E. Coli Cytochrome BO3 Quinol Oxidase Assembled in Peptidiscs within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe706 b:51.3 occ:1.00 FE A:HEO706 0.0 51.3 1.0 NC A:HEO706 2.0 51.3 1.0 NA A:HEO706 2.0 51.3 1.0 ND A:HEO706 2.0 51.3 1.0 NB A:HEO706 2.0 51.3 1.0 NE2 A:HIS419 2.4 48.7 1.0 C1C A:HEO706 3.0 51.3 1.0 C1A A:HEO706 3.1 51.3 1.0 C4D A:HEO706 3.1 51.3 1.0 C4B A:HEO706 3.1 51.3 1.0 C4C A:HEO706 3.1 51.3 1.0 C1B A:HEO706 3.1 51.3 1.0 C4A A:HEO706 3.1 51.3 1.0 C1D A:HEO706 3.1 51.3 1.0 CD2 A:HIS419 3.1 48.7 1.0 CHC A:HEO706 3.5 51.3 1.0 CHA A:HEO706 3.5 51.3 1.0 CE1 A:HIS419 3.6 48.7 1.0 CHB A:HEO706 3.6 51.3 1.0 CHD A:HEO706 3.6 51.3 1.0 C3C A:HEO706 4.3 51.3 1.0 C2C A:HEO706 4.3 51.3 1.0 C2A A:HEO706 4.3 51.3 1.0 C2B A:HEO706 4.3 51.3 1.0 C3B A:HEO706 4.3 51.3 1.0 C3D A:HEO706 4.3 51.3 1.0 C3A A:HEO706 4.3 51.3 1.0 C2D A:HEO706 4.3 51.3 1.0 CG A:HIS419 4.4 48.7 1.0 CU A:CU707 4.4 60.4 1.0 CE1 A:HIS284 4.6 49.8 1.0 ND1 A:HIS419 4.6 48.7 1.0 CG2 A:VAL423 4.6 49.9 1.0

Y.Gao, Y.Zhang, S.Hakke, R.Mohren, L.J.P.M.Sijbers, P.J.Peters, R.B.G.Ravelli. Cryo-Em Structure of Cytochrome Bo 3 Quinol Oxidase Assembled in Peptidiscs Reveals An "Open" Conformation For Potential Ubiquinone-8 Release. Biochim Biophys Acta 49045 2024BIOENERG.
ISSN: ISSN 1879-2650
PubMed: 38614453
DOI: 10.1016/J.BBABIO.2024.149045