Calcium in PDB 4dfs: Structure of the Catalytic Domain of An Endo-1,3-Beta-Glucanase (Laminarinase) From Thermotoga Petrophila Rku-1

The structure of Structure of the Catalytic Domain of An Endo-1,3-Beta-Glucanase (Laminarinase) From Thermotoga Petrophila Rku-1, PDB code: 4dfs was solved by A.N.Meza, R.Ruller, R.A.Prade, F.M.Squina, C.R.Santos, M.T.Murakami, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.15 / 3.75
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	130.036, 130.036, 141.466, 90.00, 90.00, 120.00
R / Rfree (%)	20.2 / 24

The binding sites of Calcium atom in the Structure of the Catalytic Domain of An Endo-1,3-Beta-Glucanase (Laminarinase) From Thermotoga Petrophila Rku-1 (pdb code 4dfs). 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 Catalytic Domain of An Endo-1,3-Beta-Glucanase (Laminarinase) From Thermotoga Petrophila Rku-1, PDB code: 4dfs:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Structure of the Catalytic Domain of An Endo-1,3-Beta-Glucanase (Laminarinase) From Thermotoga Petrophila Rku-1


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 Catalytic Domain of An Endo-1,3-Beta-Glucanase (Laminarinase) From Thermotoga Petrophila Rku-1 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca301 b:0.5 occ:1.00 O A:GLU17 2.4 0.0 1.0 OD1 A:ASP249 2.4 0.7 1.0 O A:ASP249 2.4 0.3 1.0 C A:ASP249 3.3 0.5 1.0 CG A:ASP249 3.4 0.8 1.0 C A:GLU17 3.4 0.9 1.0 OE1 A:GLU17 3.5 0.5 1.0 O A:GLY61 3.5 0.2 1.0 CA A:GLU17 3.8 0.8 1.0 OD1 A:ASP19 3.9 0.1 1.0 CB A:GLU17 3.9 93.8 1.0 CA A:ASP249 4.0 0.8 1.0 OD2 A:ASP249 4.1 0.8 1.0 CB A:TYR250 4.1 0.3 1.0 N A:TYR250 4.2 0.1 1.0 CB A:ASP249 4.3 0.5 1.0 CA A:TYR250 4.4 0.2 1.0 CD A:GLU17 4.5 0.0 1.0 N A:PHE18 4.6 0.5 1.0 C A:GLY61 4.7 0.2 1.0 CD2 A:TYR250 4.8 0.1 1.0 CG A:GLU17 4.8 0.6 1.0 C A:PHE18 4.9 0.9 1.0 CG A:TYR250 5.0 0.2 1.0

Calcium binding site 2 out of 2 in the Structure of the Catalytic Domain of An Endo-1,3-Beta-Glucanase (Laminarinase) From Thermotoga Petrophila Rku-1


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 Catalytic Domain of An Endo-1,3-Beta-Glucanase (Laminarinase) From Thermotoga Petrophila Rku-1 within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca301 b:0.2 occ:1.00 O B:GLU17 2.4 0.9 1.0 O B:ASP249 2.4 1.0 1.0 OD1 B:ASP249 2.4 0.2 1.0 O B:GLY61 2.5 0.3 1.0 C B:ASP249 3.3 0.4 1.0 CG B:ASP249 3.5 0.9 1.0 OD1 B:ASP19 3.5 0.6 1.0 C B:GLU17 3.6 0.1 1.0 C B:GLY61 3.6 0.6 1.0 CA B:ASP249 3.8 0.2 1.0 OE1 B:GLU17 4.0 0.7 1.0 N B:TYR250 4.2 0.7 1.0 CA B:GLY61 4.3 0.5 1.0 CB B:ASP249 4.3 0.7 1.0 OD2 B:ASP249 4.3 0.8 1.0 CA B:GLU17 4.3 0.8 1.0 CB B:TYR250 4.4 0.3 1.0 O B:PHE18 4.4 0.5 1.0 C B:PHE18 4.5 0.7 1.0 CA B:TYR250 4.6 0.1 1.0 N B:CYS62 4.6 0.9 1.0 N B:PHE18 4.6 0.1 1.0 CB B:GLU17 4.6 0.5 1.0 CB B:PHE18 4.6 0.9 1.0 CG B:ASP19 4.7 0.9 1.0 CA B:CYS62 4.8 0.7 1.0 CA B:PHE18 4.8 0.6 1.0 CD2 B:PHE18 4.9 0.4 1.0

A.N.Meza, R.Ruller, R.A.Prade, F.M.Squina, C.R.Santos, M.T.Murakami. Structural Studies of An Endo-1,3-Beta-Glucanase From Thermotoga Petrophila Rku-1 To Be Published.