Calcium in PDB 2pyg: Azotobacter Vinelandii Mannuronan C-5 Epimerase ALGE4 A-Module

The structure of Azotobacter Vinelandii Mannuronan C-5 Epimerase ALGE4 A-Module, PDB code: 2pyg was solved by H.J.Rozeboom, T.M.Bjerkan, K.H.Kalk, H.Ertesvag, S.Holtan, F.L.Aachmann, S.Valla, B.W.Dijkstra, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.10
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	173.953, 121.346, 44.715, 90.00, 90.00, 90.00
R / Rfree (%)	19.4 / 23.5

The binding sites of Calcium atom in the Azotobacter Vinelandii Mannuronan C-5 Epimerase ALGE4 A-Module (pdb code 2pyg). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Azotobacter Vinelandii Mannuronan C-5 Epimerase ALGE4 A-Module, PDB code: 2pyg:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Azotobacter Vinelandii Mannuronan C-5 Epimerase ALGE4 A-Module


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Azotobacter Vinelandii Mannuronan C-5 Epimerase ALGE4 A-Module within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca602 b:35.9 occ:0.50 O A:GLU95 2.6 35.9 1.0 O A:ALA92 2.6 23.0 1.0 OD1 A:ASP133 2.7 28.9 1.0 O A:GLY124 2.7 31.9 1.0 OG1 A:THR97 2.8 30.9 1.0 OG A:SER91 2.8 28.9 1.0 OD2 A:ASP133 3.3 28.9 1.0 CB A:SER91 3.3 30.2 1.0 CG A:ASP133 3.4 29.3 1.0 C A:ALA92 3.6 32.0 1.0 N A:ALA92 3.6 31.6 1.0 CB A:THR97 3.7 30.2 1.0 C A:GLU95 3.8 30.8 1.0 N A:THR97 3.8 31.9 1.0 C A:SER91 3.8 30.4 1.0 C A:GLY124 3.8 31.6 1.0 CA A:ALA92 4.1 32.3 1.0 CA A:SER91 4.2 30.6 1.0 N A:GLY124 4.3 29.7 1.0 O A:SER91 4.3 30.7 1.0 CA A:THR97 4.4 29.7 1.0 N A:GLU95 4.5 34.6 1.0 CA A:GLU95 4.5 29.4 1.0 CB A:GLU95 4.6 36.4 1.0 CA A:GLY124 4.6 30.4 1.0 N A:TYR93 4.7 33.6 1.0 N A:TYR125 4.7 32.6 1.0 N A:GLU96 4.7 30.3 1.0 CA A:TYR125 4.7 30.6 1.0 C A:GLU96 4.7 32.1 1.0 CA A:GLU96 4.8 32.8 1.0 CB A:ALA92 4.8 34.6 1.0 O A:HOH1043 4.8 33.8 1.0 CB A:ASP133 4.9 27.9 1.0 O A:HOH1040 4.9 33.8 1.0 CG2 A:THR97 4.9 29.5 1.0

Calcium binding site 2 out of 2 in the Azotobacter Vinelandii Mannuronan C-5 Epimerase ALGE4 A-Module


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Azotobacter Vinelandii Mannuronan C-5 Epimerase ALGE4 A-Module within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca601 b:31.8 occ:0.57 O B:GLU95 2.5 30.1 1.0 O B:GLY124 2.6 31.5 1.0 O B:ALA92 2.6 21.7 1.0 OD1 B:ASP133 2.7 26.7 1.0 OG1 B:THR97 2.8 29.5 1.0 OG B:SER91 2.9 28.5 1.0 OD2 B:ASP133 3.2 25.6 1.0 CG B:ASP133 3.3 25.9 1.0 CB B:SER91 3.6 29.7 1.0 C B:GLU95 3.6 25.9 1.0 C B:GLY124 3.7 34.3 1.0 C B:ALA92 3.7 29.6 1.0 CB B:THR97 3.8 29.9 1.0 N B:THR97 3.8 30.2 1.0 N B:ALA92 3.9 28.4 1.0 C B:SER91 4.1 30.5 1.0 N B:GLY124 4.2 29.6 1.0 N B:GLU95 4.3 31.2 1.0 CA B:ALA92 4.3 28.7 1.0 CA B:GLU95 4.4 26.1 1.0 CB B:GLU95 4.4 32.6 1.0 CA B:THR97 4.5 31.0 1.0 CA B:SER91 4.5 28.6 1.0 O B:SER91 4.5 27.1 1.0 CA B:GLY124 4.5 29.3 1.0 CA B:TYR125 4.5 30.8 1.0 N B:TYR125 4.5 32.5 1.0 N B:GLU96 4.6 25.5 1.0 CA B:GLU96 4.7 30.7 1.0 C B:GLU96 4.7 31.3 1.0 N B:TYR93 4.7 30.2 1.0 CB B:ASP133 4.8 24.8 1.0 O B:HOH719 4.9 36.9 1.0 CB B:ALA92 5.0 25.7 1.0

H.J.Rozeboom, T.M.Bjerkan, K.H.Kalk, H.Ertesvag, S.Holtan, F.L.Aachmann, S.Valla, B.W.Dijkstra. Structural and Mutational Characterization of the Catalytic A-Module of the Mannuronan C-5-Epimerase ALGE4 From Azotobacter Vinelandii. J.Biol.Chem. V. 283 23819 2008.
ISSN: ISSN 0021-9258
PubMed: 18574239
DOI: 10.1074/JBC.M804119200