Magnesium in PDB 7akk: Structure of A Complement Factor-Receptor Complex

The structure of Structure of A Complement Factor-Receptor Complex, PDB code: 7akk was solved by F.J.Fernandez, J.Santos-Lopez, R.Martinez-Barricarte, J.Querol-Garcia, S.Navas-Yuste, M.Savko, W.E.Shepard, S.Rodriguez De Cordoba, M.C.Vega, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	53.78 / 3.40
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	111.29, 150.73, 111.3, 90, 92.8, 90
R / Rfree (%)	19.2 / 22.9

The structure of Structure of A Complement Factor-Receptor Complex also contains other interesting chemical elements:

Potassium

(K)

2 atoms

The binding sites of Magnesium atom in the Structure of A Complement Factor-Receptor Complex (pdb code 7akk). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of A Complement Factor-Receptor Complex, PDB code: 7akk:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structure of A Complement Factor-Receptor Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of A Complement Factor-Receptor Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg2101 b:117.5 occ:1.00 OD1 A:ASP1144 2.0 114.8 1.0 OG D:SER144 2.0 114.4 1.0 OG1 D:THR209 2.0 117.7 1.0 OG D:SER142 2.5 112.7 1.0 CG A:ASP1144 2.7 112.7 1.0 OD2 A:ASP1144 2.8 112.0 1.0 CB D:SER144 3.1 113.7 1.0 CB D:SER142 3.2 112.9 1.0 CB D:THR209 3.4 114.3 1.0 OD2 D:ASP242 3.6 138.4 1.0 OD2 D:ASP140 3.9 102.5 1.0 CG2 D:THR209 4.0 116.3 1.0 N D:SER144 4.0 112.8 1.0 OD1 D:ASP242 4.1 136.7 1.0 CB A:ASP1144 4.1 113.3 1.0 CA D:SER144 4.2 111.5 1.0 O D:GLU244 4.2 141.2 1.0 CG D:ASP242 4.3 133.6 1.0 N D:THR209 4.4 112.1 1.0 CA D:THR209 4.4 108.2 1.0 CA D:SER142 4.5 114.8 1.0 C D:ARG208 4.6 113.7 1.0 OD1 D:ASP140 4.6 103.4 1.0 CA A:ASP1144 4.7 117.9 1.0 CG D:ASP140 4.7 103.2 1.0 C D:SER142 4.8 119.2 1.0 O D:ARG208 4.8 121.3 1.0 C D:SER144 4.9 108.9 1.0 N D:GLY143 4.9 121.1 1.0

Magnesium binding site 2 out of 2 in the Structure of A Complement Factor-Receptor Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of A Complement Factor-Receptor Complex within 5.0Å range: probe atom residue distance (Å) B Occ H:Mg2001 b:82.8 occ:1.00 OG H:SER142 2.3 83.6 1.0 OG H:SER144 2.6 73.4 1.0 CB H:SER142 2.6 86.3 1.0 OG1 H:THR209 2.7 93.5 1.0 CB H:SER144 3.1 79.0 1.0 N H:SER144 3.3 88.4 1.0 CA H:SER142 3.8 90.6 1.0 N H:GLY143 3.8 80.5 1.0 CA H:SER144 3.8 87.7 1.0 OE1 H:GLU244 3.8 99.8 1.0 C H:SER142 3.9 85.1 1.0 CB H:THR209 4.1 92.1 1.0 C H:GLY143 4.4 89.9 1.0 CD H:GLU244 4.5 96.1 1.0 CG2 H:THR209 4.5 90.7 1.0 CA H:GLY143 4.6 86.9 1.0 O H:SER142 4.7 80.1 1.0 O H:GLY207 4.7 94.7 1.0 OD1 H:ASP140 4.8 101.7 1.0 OE2 H:GLU244 4.8 95.0 1.0 C H:SER144 4.8 97.4 1.0 N H:SER142 4.8 99.8 1.0 O H:ARG208 4.8 105.2 1.0 O H:GLU244 4.8 96.5 1.0 C H:ARG208 4.9 98.1 1.0 N H:THR209 4.9 97.1 1.0 N H:ILE145 4.9 88.0 1.0

F.J.Fernandez, J.Santos-Lopez, R.Martinez-Barricarte, J.Querol-Garcia, H.Martin-Merinero, S.Navas-Yuste, M.Savko, W.E.Shepard, S.Rodriguez De Cordoba, M.C.Vega. The Crystal Structure of IC3B-CR3 Alpha I Reveals A Modular Recognition of the Main Opsonin IC3B By the CR3 Integrin Receptor Nat Commun V. 13 1955 2022.
ISSN: ESSN 2041-1723
DOI: 10.1038/S41467-022-29580-2