Calcium in PDB 7plm: Cryoem Reconstruction of Pyruvate Ferredoxin Oxidoreductase (Pfor) in Anaerobic Conditions

All present enzymatic activity of Cryoem Reconstruction of Pyruvate Ferredoxin Oxidoreductase (Pfor) in Anaerobic Conditions:
1.2.7.1;

The structure of Cryoem Reconstruction of Pyruvate Ferredoxin Oxidoreductase (Pfor) in Anaerobic Conditions also contains other interesting chemical elements:

Iron	(Fe)	24 atoms
Magnesium	(Mg)	2 atoms

The binding sites of Calcium atom in the Cryoem Reconstruction of Pyruvate Ferredoxin Oxidoreductase (Pfor) in Anaerobic Conditions (pdb code 7plm). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Cryoem Reconstruction of Pyruvate Ferredoxin Oxidoreductase (Pfor) in Anaerobic Conditions, PDB code: 7plm:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Cryoem Reconstruction of Pyruvate Ferredoxin Oxidoreductase (Pfor) in Anaerobic Conditions


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Cryoem Reconstruction of Pyruvate Ferredoxin Oxidoreductase (Pfor) in Anaerobic Conditions within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1305 b:27.5 occ:1.00 OD1 A:ASP983 2.4 36.8 1.0 OD1 A:ASN985 2.4 20.3 1.0 O A:PHE1059 2.5 38.5 1.0 O A:GLY1061 2.8 26.1 1.0 O A:ALA1056 3.1 32.4 1.0 CG A:ASP983 3.5 34.7 1.0 CG A:ASN985 3.6 17.5 1.0 C A:PHE1059 3.7 34.0 1.0 C A:GLY1061 4.0 29.2 1.0 N A:GLY1061 4.1 32.4 1.0 CB A:SER1063 4.1 15.1 1.0 ND2 A:ASN985 4.1 15.9 1.0 OD2 A:ASP983 4.1 33.4 1.0 O A:VAL984 4.1 22.1 1.0 N A:PHE1059 4.2 33.9 1.0 O A:GLU1057 4.3 29.8 1.0 CB A:PHE1059 4.3 35.0 1.0 CA A:PHE1059 4.3 33.5 1.0 C A:ALA1056 4.3 29.2 1.0 CA A:ASP983 4.5 25.8 1.0 C A:GLU1057 4.5 29.2 1.0 N A:VAL984 4.5 24.1 1.0 C A:ASP983 4.5 28.5 1.0 CA A:GLU1057 4.5 27.5 1.0 C A:VAL984 4.5 17.4 1.0 CB A:ASP983 4.6 30.1 1.0 CA A:GLY1061 4.7 30.5 1.0 CD2 A:PHE1059 4.7 30.5 1.0 N A:PRO1060 4.8 33.8 1.0 N A:SER1063 4.8 20.9 1.0 CB A:ASN985 4.8 11.8 1.0 CG A:PHE1059 4.8 31.5 1.0 C A:PRO1062 4.9 27.0 1.0 N A:GLU1057 4.9 25.1 1.0 OG A:SER1063 5.0 26.0 1.0

Calcium binding site 2 out of 2 in the Cryoem Reconstruction of Pyruvate Ferredoxin Oxidoreductase (Pfor) in Anaerobic Conditions


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Cryoem Reconstruction of Pyruvate Ferredoxin Oxidoreductase (Pfor) in Anaerobic Conditions within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1305 b:26.3 occ:1.00 OD1 B:ASP983 2.4 37.0 1.0 OD1 B:ASN985 2.4 20.0 1.0 O B:PHE1059 2.5 38.7 1.0 O B:GLY1061 2.8 24.9 1.0 O B:ALA1056 3.1 32.2 1.0 CG B:ASP983 3.5 34.4 1.0 CG B:ASN985 3.6 18.2 1.0 C B:PHE1059 3.7 32.4 1.0 C B:GLY1061 4.0 28.3 1.0 N B:GLY1061 4.1 31.9 1.0 CB B:SER1063 4.1 14.5 1.0 ND2 B:ASN985 4.1 16.6 1.0 OD2 B:ASP983 4.1 32.5 1.0 O B:VAL984 4.1 23.3 1.0 O B:GLU1057 4.3 28.3 1.0 N B:PHE1059 4.3 32.7 1.0 CB B:PHE1059 4.3 32.5 1.0 CA B:PHE1059 4.3 30.6 1.0 C B:ALA1056 4.3 28.6 1.0 CA B:ASP983 4.5 23.5 1.0 C B:GLU1057 4.5 27.4 1.0 N B:VAL984 4.5 24.1 1.0 C B:ASP983 4.5 26.9 1.0 CA B:GLU1057 4.5 26.1 1.0 C B:VAL984 4.5 17.3 1.0 CB B:ASP983 4.6 28.4 1.0 CA B:GLY1061 4.7 30.3 1.0 CD2 B:PHE1059 4.7 28.2 1.0 N B:PRO1060 4.8 32.0 1.0 N B:SER1063 4.8 22.3 1.0 CB B:ASN985 4.8 12.5 1.0 CG B:PHE1059 4.8 29.5 1.0 C B:PRO1062 4.9 27.3 1.0 N B:GLU1057 4.9 23.7 1.0 OG B:SER1063 5.0 28.7 1.0 CA B:PRO1060 5.0 33.2 1.0

M.V.Cherrier, X.Vernede, D.Fenel, L.Martin, B.Arragain, E.Neumann, J.C.Fontecilla-Camps, G.Schoehn, Y.Nicolet. Oxygen-Sensitive Metalloprotein Structure Determination By Cryo-Electron Microscopy. Biomolecules V. 12 2022.
ISSN: ESSN 2218-273X
PubMed: 35327633
DOI: 10.3390/BIOM12030441