Sodium in PDB 9b1z: Crystal Structure of Adp-Ribose Diphosphatase From Klebsiella Pneumoniae (Apo)

All present enzymatic activity of Crystal Structure of Adp-Ribose Diphosphatase From Klebsiella Pneumoniae (Apo):
3.6.1.13;

The structure of Crystal Structure of Adp-Ribose Diphosphatase From Klebsiella Pneumoniae (Apo), PDB code: 9b1z was solved by Seattle Structural Genomics Center For Infectious Disease, Seattlestructural Genomics Center For Infectious Disease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.58 / 1.25
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	50.696, 74.289, 58.021, 90, 115.8, 90
R / Rfree (%)	11.8 / 14.6

The binding sites of Sodium atom in the Crystal Structure of Adp-Ribose Diphosphatase From Klebsiella Pneumoniae (Apo) (pdb code 9b1z). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of Adp-Ribose Diphosphatase From Klebsiella Pneumoniae (Apo), PDB code: 9b1z:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Adp-Ribose Diphosphatase From Klebsiella Pneumoniae (Apo)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Adp-Ribose Diphosphatase From Klebsiella Pneumoniae (Apo) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na301 b:17.6 occ:1.00 O A:ALA96 2.2 12.7 1.0 O A:HOH593 2.3 25.1 1.0 O A:HOH604 2.3 20.6 1.0 OE1 A:GLU112 2.4 18.3 1.0 OE1 A:GLU116 2.5 15.4 1.0 O A:HOH582 3.1 31.9 1.0 CD A:GLU116 3.2 16.3 1.0 CD A:GLU112 3.3 17.9 1.0 C A:ALA96 3.4 10.9 1.0 OE2 A:GLU116 3.9 16.9 1.0 O A:HOH529 3.9 29.2 1.0 CB A:GLU116 3.9 16.9 1.0 CG A:GLU116 4.0 17.6 1.0 OE2 A:GLU112 4.0 18.5 1.0 O A:HOH416 4.1 44.4 1.0 O A:HOH456 4.1 29.8 1.0 N A:ALA96 4.1 9.9 1.0 CG A:GLU112 4.2 16.9 1.0 CA A:GLY97 4.2 12.1 1.0 N A:GLY97 4.2 10.6 1.0 CB A:GLU112 4.3 16.4 1.0 CA A:ALA96 4.4 11.0 1.0 O A:HOH537 4.6 62.8 1.0 O A:HOH641 4.9 51.1 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Adp-Ribose Diphosphatase From Klebsiella Pneumoniae (Apo)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Adp-Ribose Diphosphatase From Klebsiella Pneumoniae (Apo) within 5.0Å range: probe atom residue distance (Å) B Occ B:Na301 b:32.0 occ:1.00 O B:HOH610 2.1 39.5 1.0 O B:ALA96 2.2 11.9 1.0 O B:HOH632 2.3 39.1 1.0 OE1 B:GLU112 2.4 18.4 1.0 OE1 B:GLU116 2.6 20.9 1.0 O B:HOH535 3.0 42.7 1.0 CD B:GLU116 3.2 21.2 1.0 CD B:GLU112 3.3 17.3 1.0 C B:ALA96 3.4 10.4 1.0 OE2 B:GLU116 3.7 22.0 1.0 O B:HOH495 3.9 33.2 1.0 OE2 B:GLU112 3.9 17.4 1.0 CG B:GLU116 4.0 21.4 1.0 O B:HOH434 4.0 36.5 1.0 CB B:GLU116 4.1 20.2 1.0 N B:ALA96 4.2 9.1 1.0 CG B:GLU112 4.2 16.8 1.0 CA B:GLY97 4.3 11.3 1.0 N B:GLY97 4.3 10.7 1.0 CB B:GLU112 4.3 16.2 1.0 CA B:ALA96 4.4 9.9 1.0 O B:HOH531 4.9 41.7 1.0 O B:HOH442 5.0 25.5 1.0

L.Liu, S.Lovell, G.W.Buchko, K.P.Battaile. Crystal Structure of Adp-Ribose Diphosphatase From Klebsiella Pneumoniae (Apo) To Be Published.