Sodium in PDB 5syx: Crystal Structure of Burkholderia Pseudomallei Katg Variant W139F

All present enzymatic activity of Crystal Structure of Burkholderia Pseudomallei Katg Variant W139F:
1.11.1.21;

The structure of Crystal Structure of Burkholderia Pseudomallei Katg Variant W139F, PDB code: 5syx was solved by P.C.Loewen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 1.77
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	100.667, 115.954, 175.022, 90.00, 90.00, 90.00
R / Rfree (%)	14.1 / 17.2

The structure of Crystal Structure of Burkholderia Pseudomallei Katg Variant W139F also contains other interesting chemical elements:

Iron	(Fe)	2 atoms
Chlorine	(Cl)	2 atoms

The binding sites of Sodium atom in the Crystal Structure of Burkholderia Pseudomallei Katg Variant W139F (pdb code 5syx). 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 Burkholderia Pseudomallei Katg Variant W139F, PDB code: 5syx:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Burkholderia Pseudomallei Katg Variant W139F


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 Burkholderia Pseudomallei Katg Variant W139F within 5.0Å range: probe atom residue distance (Å) B Occ A:Na802 b:16.8 occ:1.00 O A:GLY124 2.3 14.6 1.0 O A:HOH1076 2.3 18.1 1.0 O A:GLY122 2.4 14.2 1.0 O A:HOH1542 2.4 19.9 1.0 O A:SER494 2.5 17.1 1.0 C A:SER494 3.2 17.3 1.0 C A:GLY124 3.5 15.8 1.0 C A:GLY122 3.5 14.5 1.0 C A:ARG123 3.5 15.0 1.0 N A:GLY124 3.5 14.9 1.0 CA A:ARG123 3.6 15.8 1.0 O A:HOH1587 3.9 18.0 1.0 CA A:SER494 4.0 14.5 1.0 O A:HOH987 4.0 28.9 1.0 OD2 A:ASP427 4.0 16.8 1.0 N A:ARG123 4.0 15.4 1.0 N A:ASP495 4.1 15.9 1.0 CA A:GLY124 4.1 14.8 1.0 CB A:ASP427 4.1 17.4 1.0 CB A:SER494 4.2 15.7 1.0 O A:ARG123 4.2 14.7 1.0 CA A:ASP495 4.4 16.4 1.0 N A:GLY125 4.6 14.4 1.0 CB A:ASP495 4.6 15.6 1.0 CG A:ASP427 4.6 18.2 1.0 CL A:CL803 4.7 38.3 1.0 CD1 A:TYR117 4.7 15.9 1.0 CA A:GLY122 4.8 15.1 1.0 CA A:GLY125 4.9 14.2 1.0 CB A:ARG123 4.9 18.1 1.0 OE2 A:GLU128 4.9 30.6 1.0 CE1 A:TYR117 5.0 14.7 1.0 OG A:SER494 5.0 16.0 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Burkholderia Pseudomallei Katg Variant W139F


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 Burkholderia Pseudomallei Katg Variant W139F within 5.0Å range: probe atom residue distance (Å) B Occ B:Na802 b:17.0 occ:1.00 O B:HOH1514 2.3 20.6 1.0 O B:HOH1091 2.3 23.4 1.0 O B:GLY124 2.4 14.9 1.0 O B:GLY122 2.4 13.7 1.0 O B:SER494 2.5 18.1 1.0 C B:SER494 3.3 15.8 1.0 C B:GLY122 3.5 14.9 1.0 C B:ARG123 3.6 14.1 1.0 C B:GLY124 3.6 14.7 1.0 N B:GLY124 3.6 15.3 1.0 CA B:ARG123 3.6 13.8 1.0 O B:HOH1551 3.9 18.1 1.0 CA B:SER494 4.0 14.4 1.0 N B:ARG123 4.1 13.2 1.0 OD2 B:ASP427 4.1 15.9 1.0 O B:HOH1076 4.1 28.2 1.0 CB B:SER494 4.1 15.2 1.0 N B:ASP495 4.1 13.3 1.0 O B:ARG123 4.2 14.4 1.0 CB B:ASP427 4.2 16.5 1.0 CA B:GLY124 4.2 14.5 1.0 CA B:ASP495 4.5 14.2 1.0 CB B:ASP495 4.6 14.1 1.0 CD1 B:TYR117 4.6 15.4 1.0 N B:GLY125 4.7 14.2 1.0 OE2 B:GLU128 4.7 28.3 1.0 CG B:ASP427 4.7 17.2 1.0 CL B:CL803 4.8 38.5 1.0 CA B:GLY122 4.8 14.4 1.0 CA B:GLY125 4.9 14.0 1.0 CB B:ARG123 4.9 14.6 1.0 CE1 B:TYR117 4.9 15.0 1.0 OG B:SER494 5.0 15.4 1.0

P.C.Loewen, P.C.Loewen. N/A N/A.