Calcium in PDB 7vzr: Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form)

The structure of Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form) also contains other interesting chemical elements:

Magnesium	(Mg)	26 atoms
Iron	(Fe)	6 atoms
Zinc	(Zn)	2 atoms

The binding sites of Calcium atom in the Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form) (pdb code 7vzr). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form), PDB code: 7vzr:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca914 b:37.4 occ:1.00 O A:HOH1003 2.5 30.0 1.0 O A:GLY860 2.6 0.0 1.0 OD2 A:ASP732 2.7 4.0 1.0 OD1 A:ASP859 2.7 4.0 1.0 OE1 A:GLU766 2.8 4.0 1.0 OD1 A:ASP732 2.8 4.0 1.0 O A:TYR856 2.9 4.0 1.0 CG A:ASP732 3.1 4.0 1.0 OE2 A:GLU766 3.4 4.0 1.0 CD A:GLU766 3.4 4.0 1.0 C A:GLY860 3.7 0.0 1.0 CG A:ASP859 3.7 4.0 1.0 C A:TYR856 4.0 4.0 1.0 OD2 A:ASP859 4.0 4.0 1.0 O A:HOH1001 4.0 30.0 1.0 CA A:PHE861 4.2 4.0 1.0 O A:PHE857 4.2 4.0 1.0 N A:PHE861 4.3 4.0 1.0 N A:GLY860 4.3 0.0 1.0 O A:ASP732 4.5 4.0 1.0 CB A:ASP732 4.5 4.0 1.0 CA A:PHE857 4.6 4.0 1.0 C A:PHE857 4.6 4.0 1.0 CA A:GLY860 4.7 0.0 1.0 CD1 A:PHE862 4.7 4.0 1.0 CG A:GLU766 4.7 4.0 1.0 N A:PHE857 4.7 4.0 1.0 C A:ASP859 4.8 4.0 1.0 CA A:TYR856 4.9 4.0 1.0 N A:PHE862 4.9 4.0 1.0 CB A:ASP859 4.9 4.0 1.0

Calcium binding site 2 out of 2 in the Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form) within 5.0Å range: probe atom residue distance (Å) B Occ a:Ca916 b:37.7 occ:1.00 OD1 a:ASP859 2.2 4.0 1.0 O a:GLY860 2.5 0.0 1.0 O a:HOH1001 2.6 30.0 1.0 OE1 a:GLU766 2.6 4.0 1.0 O a:TYR856 2.7 4.0 1.0 OD1 a:ASP732 2.8 4.0 1.0 OD2 a:ASP732 3.1 4.0 1.0 CG a:ASP859 3.3 4.0 1.0 CG a:ASP732 3.3 4.0 1.0 C a:GLY860 3.5 0.0 1.0 CD a:GLU766 3.5 4.0 1.0 OD2 a:ASP859 3.6 4.0 1.0 OE2 a:GLU766 3.7 4.0 1.0 C a:TYR856 3.9 4.0 1.0 CD2 a:PHE862 4.0 4.0 1.0 N a:GLY860 4.1 0.0 1.0 O a:HOH1002 4.2 30.0 1.0 CA a:PHE861 4.2 4.0 1.0 CE2 a:PHE862 4.2 4.0 1.0 N a:PHE861 4.3 4.0 1.0 CA a:GLY860 4.3 0.0 1.0 O a:ASP732 4.4 4.0 1.0 O a:PHE857 4.5 4.0 1.0 CB a:ASP859 4.6 4.0 1.0 CA a:PHE857 4.6 4.0 1.0 CB a:ASP732 4.6 4.0 1.0 C a:ASP859 4.7 4.0 1.0 N a:PHE862 4.7 4.0 1.0 N a:PHE857 4.7 4.0 1.0 C a:PHE857 4.8 4.0 1.0 CG a:GLU766 4.8 4.0 1.0 CA a:TYR856 4.8 4.0 1.0 OH a:TYR762 4.9 4.0 1.0 CA a:ASP859 4.9 4.0 1.0 N a:ASP859 4.9 4.0 1.0 C a:PHE861 5.0 4.0 1.0

S.Dong, G.Huang, C.Wang, J.Wang, S.F.Sui, X.Qin. Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C Nat Commun V. 13 7745 2022.
ISSN: ESSN 2041-1723
DOI: 10.1038/S41467-022-35460-6