Sodium in PDB 7c9b: Crystal Structure of Di-Peptidase-E From Xenopus Laevis

All present enzymatic activity of Crystal Structure of Di-Peptidase-E From Xenopus Laevis:
3.4.13.21;

The structure of Crystal Structure of Di-Peptidase-E From Xenopus Laevis, PDB code: 7c9b was solved by A.Kumar, R.Singh, R.D.Makde, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	34.84 / 1.40
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	83.775, 40.9, 74.221, 90, 116.2, 90
R / Rfree (%)	20 / 22.6

The structure of Crystal Structure of Di-Peptidase-E From Xenopus Laevis also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Sodium atom in the Crystal Structure of Di-Peptidase-E From Xenopus Laevis (pdb code 7c9b). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of Di-Peptidase-E From Xenopus Laevis, PDB code: 7c9b:

Sodium binding site 1 out of 1 in the Crystal Structure of Di-Peptidase-E From Xenopus Laevis


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 Di-Peptidase-E From Xenopus Laevis within 5.0Å range: probe atom residue distance (Å) B Occ A:Na302 b:25.7 occ:1.00 O A:HOH533 2.2 29.1 1.0 O A:GLY92 2.3 18.5 1.0 OD2 A:ASP140 2.5 15.8 1.0 O A:HOH406 2.5 32.6 1.0 OD1 A:ASP140 2.6 20.5 1.0 CG A:ASP140 2.9 16.8 1.0 C A:GLY92 3.5 18.1 1.0 O A:HOH490 3.7 35.7 1.0 OG A:SER125 4.1 18.8 1.0 N A:GLY92 4.2 20.9 1.0 OG1 A:THR94 4.3 14.1 1.0 CA A:ASN93 4.3 12.5 1.0 CA A:GLY92 4.3 17.8 1.0 CA A:CA301 4.3 25.5 1.0 N A:ASN93 4.4 13.8 1.0 CB A:ASP140 4.4 15.5 1.0 N A:THR94 4.5 13.5 1.0 CB A:ALA126 4.5 14.5 1.0 N A:ALA126 4.7 13.4 1.0 C A:ASN93 4.9 13.4 1.0 O A:HOH475 5.0 42.5 1.0 CA A:ALA126 5.0 13.6 1.0

A.Kumar, R.Singh, R.D.Makde. Crystal Structure of Di-Peptidase-E From Xenopus Laevis To Be Published.