Calcium in PDB 7rj9: Crystal Structure of the Vitronectin Hemopexin-Like Domain Binding Calcium

The structure of Crystal Structure of the Vitronectin Hemopexin-Like Domain Binding Calcium, PDB code: 7rj9 was solved by A.E.Aleshin, F.M.Marassi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	35.69 / 1.70
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	40.832, 125.575, 40.883, 90, 119.25, 90
R / Rfree (%)	17.1 / 21

The structure of Crystal Structure of the Vitronectin Hemopexin-Like Domain Binding Calcium also contains other interesting chemical elements:

Chlorine	(Cl)	2 atoms
Sodium	(Na)	2 atoms

The binding sites of Calcium atom in the Crystal Structure of the Vitronectin Hemopexin-Like Domain Binding Calcium (pdb code 7rj9). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of the Vitronectin Hemopexin-Like Domain Binding Calcium, PDB code: 7rj9:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of the Vitronectin Hemopexin-Like Domain Binding Calcium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of the Vitronectin Hemopexin-Like Domain Binding Calcium within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca501 b:14.5 occ:1.00 O A:ASP347 2.3 14.4 1.0 O A:ASP207 2.3 13.5 1.0 O A:ASP255 2.4 15.3 1.0 O A:ASP162 2.4 17.0 1.0 O A:HOH699 2.5 22.5 1.0 O A:HOH669 2.5 15.6 1.0 O A:HOH644 2.5 18.7 1.0 C A:ASP207 3.5 14.8 1.0 C A:ASP255 3.5 13.8 1.0 C A:ASP162 3.5 16.7 1.0 C A:ASP347 3.5 16.9 1.0 CA A:ASP207 4.0 15.2 1.0 CA A:ASP162 4.1 17.9 1.0 CA A:ASP255 4.1 15.2 1.0 CA A:ASP347 4.3 17.5 1.0 O A:HOH710 4.4 40.1 1.0 N A:ALA348 4.5 13.8 1.0 N A:ALA256 4.5 12.4 1.0 O A:HOH670 4.5 37.0 1.0 O A:ILE206 4.6 17.6 0.5 N A:ALA208 4.6 14.3 1.0 N A:ALA163 4.6 15.6 1.0 O A:ILE206 4.6 18.2 0.5 O A:VAL254 4.7 16.1 1.0 CB A:ASP162 4.7 18.7 1.0 CA A:ALA348 4.8 14.0 1.0 CB A:ASP207 4.9 16.9 1.0 CA A:ALA256 4.9 12.4 1.0 CB A:ASP347 4.9 21.1 1.0 CA A:ALA163 4.9 14.8 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of the Vitronectin Hemopexin-Like Domain Binding Calcium


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of the Vitronectin Hemopexin-Like Domain Binding Calcium within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca501 b:10.7 occ:1.00 O B:ASP255 2.3 12.1 1.0 O B:ASP162 2.3 12.5 1.0 O B:ASP207 2.3 10.4 1.0 O B:ASP347 2.4 12.5 1.0 O B:HOH751 2.4 30.4 1.0 O B:HOH754 2.4 20.1 1.0 O B:HOH706 2.6 19.2 1.0 C B:ASP255 3.4 12.0 1.0 C B:ASP162 3.4 11.8 1.0 C B:ASP207 3.5 11.4 1.0 C B:ASP347 3.5 13.3 1.0 CA B:ASP162 3.9 13.2 1.0 CA B:ASP255 4.0 13.2 1.0 CA B:ASP207 4.1 12.5 1.0 CA B:ASP347 4.2 14.4 1.0 N B:ALA256 4.5 11.5 1.0 N B:ALA208 4.6 11.1 1.0 N B:ALA348 4.6 12.1 1.0 N B:ALA163 4.6 12.1 1.0 O B:HOH733 4.6 45.5 1.0 CB B:ASP162 4.6 14.2 1.0 O B:HOH697 4.6 30.2 1.0 O B:VAL254 4.7 14.5 1.0 O B:ILE206 4.7 15.3 1.0 O B:PHE161 4.8 14.5 1.0 O B:HOH730 4.9 37.9 1.0 CA B:ALA256 4.9 11.5 1.0 CA B:ALA348 4.9 12.2 1.0 CB B:ASP255 4.9 14.4 1.0 CB B:ASP207 4.9 13.0 1.0 CB B:ASP347 4.9 15.1 1.0 CA B:ALA208 4.9 10.9 1.0 CA B:ALA163 5.0 11.7 1.0

A.E.Aleshin, F.M.Marassi. Crystal Structure of the Vitronectin Hemopexin-Like Domain Binding Calcium To Be Published.