Calcium in PDB 2vy0: The X-Ray Structure of Endo-Beta-1,3-Glucanase From Pyrococcus Furiosus

All present enzymatic activity of The X-Ray Structure of Endo-Beta-1,3-Glucanase From Pyrococcus Furiosus:
3.2.1.39;

The structure of The X-Ray Structure of Endo-Beta-1,3-Glucanase From Pyrococcus Furiosus, PDB code: 2vy0 was solved by A.Ilari, A.Fiorillo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.16
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	44.363, 84.762, 69.232, 90.00, 104.97, 90.00
R / Rfree (%)	19.1 / 22.9

The structure of The X-Ray Structure of Endo-Beta-1,3-Glucanase From Pyrococcus Furiosus also contains other interesting chemical elements:

Chlorine	(Cl)	3 atoms
Sodium	(Na)	3 atoms

The binding sites of Calcium atom in the The X-Ray Structure of Endo-Beta-1,3-Glucanase From Pyrococcus Furiosus (pdb code 2vy0). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the The X-Ray Structure of Endo-Beta-1,3-Glucanase From Pyrococcus Furiosus, PDB code: 2vy0:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the The X-Ray Structure of Endo-Beta-1,3-Glucanase From Pyrococcus Furiosus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The X-Ray Structure of Endo-Beta-1,3-Glucanase From Pyrococcus Furiosus within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1298 b:22.2 occ:1.00 O A:HOH2011 2.3 13.9 1.0 O A:GLY97 2.3 21.9 1.0 OD1 A:ASP287 2.4 14.5 1.0 O A:ASP287 2.4 15.2 1.0 O A:GLU53 2.4 19.5 1.0 O A:HOH2132 2.9 28.8 1.0 OE2 A:GLU55 3.0 31.8 1.0 C A:ASP287 3.4 15.6 1.0 C A:GLY97 3.4 22.0 1.0 CG A:ASP287 3.5 14.8 1.0 C A:GLU53 3.5 19.8 1.0 CA A:ASP287 3.9 14.9 1.0 CA A:GLY97 3.9 22.7 1.0 CA A:GLU53 4.1 19.5 1.0 CD A:GLU55 4.2 31.6 1.0 CB A:GLU53 4.3 19.4 1.0 CB A:ASP287 4.3 14.8 1.0 O A:HOH2131 4.3 35.8 1.0 OD2 A:ASP287 4.4 16.8 1.0 N A:TYR288 4.5 15.9 1.0 N A:THR98 4.5 21.6 1.0 OE1 A:GLU53 4.6 18.5 1.0 N A:PHE54 4.6 20.5 1.0 CB A:TYR288 4.7 16.4 1.0 CB A:PHE54 4.8 21.2 1.0 CA A:TYR288 4.9 16.2 1.0 C A:PHE54 4.9 22.6 1.0 CD2 A:TYR288 4.9 18.1 1.0 CA A:THR98 4.9 21.4 1.0 O A:PHE54 5.0 22.8 1.0 CA A:PHE54 5.0 21.7 1.0 OE1 A:GLU55 5.0 32.4 1.0 CG A:GLU55 5.0 28.2 1.0

Calcium binding site 2 out of 2 in the The X-Ray Structure of Endo-Beta-1,3-Glucanase From Pyrococcus Furiosus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The X-Ray Structure of Endo-Beta-1,3-Glucanase From Pyrococcus Furiosus within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1298 b:22.1 occ:1.00 O B:GLY97 2.1 21.9 1.0 O B:GLU53 2.2 19.8 1.0 OD1 B:ASP287 2.3 18.2 1.0 O B:HOH2007 2.3 30.4 1.0 O B:HOH2006 2.4 20.6 1.0 O B:ASP287 2.4 17.7 1.0 OE1 B:GLU55 3.1 33.5 1.0 C B:GLY97 3.2 22.1 1.0 C B:ASP287 3.4 17.9 1.0 C B:GLU53 3.4 20.0 1.0 CG B:ASP287 3.4 18.0 1.0 CA B:GLY97 3.8 22.8 1.0 CA B:ASP287 3.9 17.9 1.0 CA B:GLU53 4.0 19.6 1.0 OD2 B:ASP287 4.2 17.5 1.0 CB B:ASP287 4.2 18.1 1.0 CD B:GLU55 4.3 31.8 1.0 CB B:GLU53 4.3 19.9 1.0 O B:HOH2109 4.3 24.6 1.0 N B:THR98 4.4 21.7 1.0 OE1 B:GLU53 4.4 20.1 1.0 N B:PHE54 4.5 20.6 1.0 N B:TYR288 4.5 17.8 1.0 C B:PHE54 4.7 22.7 1.0 CB B:PHE54 4.7 21.3 1.0 CB B:TYR288 4.7 17.7 1.0 CA B:THR98 4.7 21.3 1.0 O B:PHE54 4.8 22.7 1.0 CA B:PHE54 4.8 21.8 1.0 CA B:TYR288 4.9 17.6 1.0

A.Ilari, A.Fiorillo, S.Angelaccio, R.Florio, R.Chiaraluce, J.Van Der Oost, V.Consalvi. Crystal Structure of A Family 16 Endoglucanase From the Hyperthermophile Pyrococcus Furiosus- Structural Basis of Substrate Recognition. Febs J. V. 276 1048 2009.
ISSN: ISSN 1742-464X
PubMed: 19154353
DOI: 10.1111/J.1742-4658.2008.06848.X