Sodium in PDB 5l6z: Crystal Structure of D62A Mutant of Thermotoga Maritima TMPEP1050 Aminopeptidase

All present enzymatic activity of Crystal Structure of D62A Mutant of Thermotoga Maritima TMPEP1050 Aminopeptidase:
3.2.1.4;

The structure of Crystal Structure of D62A Mutant of Thermotoga Maritima TMPEP1050 Aminopeptidase, PDB code: 5l6z was solved by R.Dutoit, D.Van Elder, C.Bauvois, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.00 / 1.50
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	42.180, 113.960, 267.230, 90.00, 90.00, 90.00
R / Rfree (%)	18.3 / 21.5

The binding sites of Sodium atom in the Crystal Structure of D62A Mutant of Thermotoga Maritima TMPEP1050 Aminopeptidase (pdb code 5l6z). 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 D62A Mutant of Thermotoga Maritima TMPEP1050 Aminopeptidase, PDB code: 5l6z:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of D62A Mutant of Thermotoga Maritima TMPEP1050 Aminopeptidase


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 D62A Mutant of Thermotoga Maritima TMPEP1050 Aminopeptidase within 5.0Å range: probe atom residue distance (Å) B Occ A:Na402 b:33.8 occ:1.00 O A:LEU26 2.7 16.1 1.0 O A:HOH818 2.8 23.6 1.0 OE1 A:GLU30 2.9 51.4 0.5 O A:HOH826 3.0 36.7 1.0 CA A:GLU30 3.5 18.5 0.5 CA A:GLU30 3.5 18.6 0.5 C A:LEU26 3.5 11.0 1.0 N A:GLU30 3.6 17.0 0.5 N A:GLU30 3.6 17.0 0.5 CB A:GLU30 3.7 22.6 0.5 CB A:GLU30 3.8 22.3 0.5 CA A:LEU26 3.8 9.8 1.0 CD2 A:LEU26 3.8 11.3 1.0 CB A:LEU26 3.8 8.9 1.0 CD A:GLU30 4.0 45.9 0.5 O A:HOH661 4.0 43.0 1.0 C A:LEU29 4.1 12.7 1.0 CG A:GLU30 4.2 39.0 0.5 O A:HOH841 4.3 33.9 1.0 CD1 A:ILE33 4.3 15.1 1.0 CG A:LEU26 4.5 8.4 1.0 CG A:GLU30 4.5 40.7 0.5 O A:LEU29 4.5 15.0 1.0 O A:HOH725 4.5 19.8 1.0 CB A:LEU29 4.6 10.3 1.0 N A:GLU27 4.7 14.1 1.0 O A:HOH802 4.7 45.4 1.0 CG1 A:ILE33 4.7 18.0 1.0 O A:HOH539 4.7 29.7 1.0 CA A:LEU29 4.8 11.9 1.0 C A:GLU30 4.9 19.5 0.5 C A:GLU30 4.9 19.5 0.5 OE2 A:GLU30 5.0 54.0 0.5

Sodium binding site 2 out of 2 in the Crystal Structure of D62A Mutant of Thermotoga Maritima TMPEP1050 Aminopeptidase


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 D62A Mutant of Thermotoga Maritima TMPEP1050 Aminopeptidase within 5.0Å range: probe atom residue distance (Å) B Occ A:Na403 b:18.7 occ:1.00 O A:HOH778 2.7 15.3 1.0 O A:ASP168 2.8 8.5 1.0 O A:HOH571 2.8 11.4 1.0 N A:ILE64 3.0 10.1 1.0 O A:HOH629 3.4 15.7 1.0 CB A:GLU63 3.5 7.3 1.0 CA A:GLU63 3.5 8.3 1.0 CG1 A:ILE64 3.6 7.8 1.0 CA A:ALA166 3.7 9.0 1.0 C A:GLU63 3.8 8.4 1.0 CG2 A:ILE64 3.9 10.9 1.0 C A:ASP168 4.0 8.1 1.0 CB A:ILE64 4.0 8.4 1.0 O A:HOH551 4.1 16.4 1.0 CA A:ILE64 4.1 8.3 1.0 CB A:ALA166 4.1 9.4 1.0 CD1 A:ILE64 4.2 11.0 1.0 N A:ALA166 4.4 9.9 1.0 OE2 A:GLU311 4.5 12.7 1.0 CB A:ASP168 4.6 8.6 1.0 C A:ALA166 4.7 6.7 1.0 CG A:GLU63 4.7 9.5 1.0 CA A:ASP168 4.7 8.6 1.0 O A:ILE64 4.8 10.2 1.0 N A:GLU63 4.8 8.7 1.0 O A:HOH610 4.8 11.4 1.0 O A:ALA62 4.9 14.3 1.0 C A:ILE64 4.9 10.4 1.0 OE1 A:GLU311 4.9 9.6 1.0 N A:ASP169 4.9 4.8 1.0 N A:ASP168 5.0 8.1 1.0 O A:GLU63 5.0 11.5 1.0

R.Dutoit, N.Brandt, D.Van Elder, V.Durisotti, C.Bauvois, L.Droogmans. The Crystal Structure of TMPEP1050 From Thermotoga Maritima Sheds Light on the Oligomerization of M42 Aminopeptidases. To Be Published.