Sodium in PDB 2zsg: Crystal Structure of X-Pro Aminopeptidase From Thermotoga Maritima MSB8

All present enzymatic activity of Crystal Structure of X-Pro Aminopeptidase From Thermotoga Maritima MSB8:
3.4.11.9;

The structure of Crystal Structure of X-Pro Aminopeptidase From Thermotoga Maritima MSB8, PDB code: 2zsg was solved by H.Mizutani, N.Kunishima, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 1.65
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	116.972, 77.923, 77.553, 90.00, 92.44, 90.00
R / Rfree (%)	19.1 / 21.5

The structure of Crystal Structure of X-Pro Aminopeptidase From Thermotoga Maritima MSB8 also contains other interesting chemical elements:

Chlorine	(Cl)	4 atoms
Zinc	(Zn)	1 atom

The binding sites of Sodium atom in the Crystal Structure of X-Pro Aminopeptidase From Thermotoga Maritima MSB8 (pdb code 2zsg). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Crystal Structure of X-Pro Aminopeptidase From Thermotoga Maritima MSB8, PDB code: 2zsg:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Crystal Structure of X-Pro Aminopeptidase From Thermotoga Maritima MSB8


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 X-Pro Aminopeptidase From Thermotoga Maritima MSB8 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1002 b:20.7 occ:1.00 O A:LYS259 2.2 17.5 1.0 O A:HOH1022 2.3 14.8 1.0 O A:HOH1020 2.5 14.7 1.0 CL A:CL1006 2.8 31.2 1.0 C A:LYS259 3.2 17.6 1.0 CA A:LYS259 3.8 17.1 1.0 N A:ILE260 4.1 17.4 1.0 O A:LEU258 4.3 17.8 1.0 CA A:ILE260 4.4 17.3 1.0 O A:ALA261 4.4 16.9 1.0 CA A:GLY345 4.5 13.4 1.0 C A:ILE260 4.6 16.4 1.0 O A:GLN344 4.6 14.7 1.0 CB A:LYS259 4.7 20.5 1.0 N A:ALA261 4.7 15.7 1.0 N A:LYS259 4.9 17.4 1.0

Sodium binding site 2 out of 3 in the Crystal Structure of X-Pro Aminopeptidase From Thermotoga Maritima MSB8


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 X-Pro Aminopeptidase From Thermotoga Maritima MSB8 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1003 b:35.6 occ:1.00 OE2 A:GLU155 2.4 23.9 1.0 O A:HOH1223 2.4 41.4 1.0 OE2 A:GLU180 2.7 18.0 1.0 NZ A:LYS179 3.1 28.1 1.0 CD A:GLU155 3.3 22.2 1.0 CD A:GLU180 3.6 16.9 1.0 OE1 A:GLU155 3.7 19.0 1.0 OE1 A:GLU180 3.8 19.6 1.0 CD A:ARG151 4.1 23.8 1.0 CE A:LYS179 4.4 24.5 1.0 CG A:ARG151 4.4 18.9 1.0 CG A:GLU155 4.4 20.1 1.0 NH1 A:ARG151 4.7 28.1 1.0 O A:HOH1232 4.8 35.0 1.0 O A:HOH1330 4.8 32.9 1.0 CG A:GLU180 4.9 14.9 1.0

Sodium binding site 3 out of 3 in the Crystal Structure of X-Pro Aminopeptidase From Thermotoga Maritima MSB8


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of X-Pro Aminopeptidase From Thermotoga Maritima MSB8 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na1004 b:35.9 occ:1.00 O B:LYS65 2.2 19.2 1.0 O B:THR68 2.4 17.1 1.0 O B:HOH1355 2.5 43.3 1.0 O B:HOH1162 2.6 29.8 1.0 O B:HOH1265 2.7 47.6 1.0 O B:HOH1076 3.2 25.2 1.0 C B:LYS65 3.4 18.9 1.0 C B:THR68 3.5 16.1 1.0 CA B:LYS65 4.0 18.6 1.0 CA B:ASP69 4.2 19.5 1.0 N B:ASP69 4.3 17.7 1.0 N B:THR68 4.4 15.4 1.0 N B:GLN66 4.4 15.7 1.0 CA B:THR68 4.6 15.6 1.0 C B:GLN66 4.6 17.1 1.0 O B:GLN66 4.6 17.6 1.0 CA B:GLN66 4.7 16.1 1.0 CB B:LYS65 4.7 20.0 1.0 O B:HOH1263 4.8 34.3 1.0 O B:ALA64 4.9 19.0 1.0 O B:HOH1218 4.9 33.5 1.0

H.Mizutani, N.Kunishima. Crystal Structure of X-Pro Aminopeptidase From Thermotoga Maritima MSB8 To Be Published.