Sodium in PDB 3uz5: Designed Protein KE59 R13 3/11H

The structure of Designed Protein KE59 R13 3/11H, PDB code: 3uz5 was solved by O.Khersonsky, G.Kiss, D.Roethlisberger, O.Dym, S.Albeck, K.N.Houk, D.Baker, D.S.Tawfik, Israel Structural Proteomics Center (Ispc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	8.00 / 1.90
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	95.476, 123.744, 45.702, 90.00, 90.00, 90.00
R / Rfree (%)	18.4 / 25.1

The structure of Designed Protein KE59 R13 3/11H also contains other interesting chemical elements:

Chlorine

(Cl)

4 atoms

The binding sites of Sodium atom in the Designed Protein KE59 R13 3/11H (pdb code 3uz5). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Designed Protein KE59 R13 3/11H, PDB code: 3uz5:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Designed Protein KE59 R13 3/11H


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Designed Protein KE59 R13 3/11H within 5.0Å range: probe atom residue distance (Å) B Occ A:Na301 b:4.4 occ:1.00 N A:TYR4 3.7 13.0 1.0 CB A:ARG3 4.0 14.6 1.0 CD2 A:TYR4 4.0 11.9 1.0 CG A:ARG3 4.1 15.9 1.0 CA A:ARG3 4.2 14.4 1.0 C A:ARG3 4.5 14.6 1.0 CB A:TYR4 4.5 14.4 1.0 CA A:TYR4 4.6 14.9 1.0 NH1 A:ARG3 4.7 24.0 1.0 CD A:ARG3 4.8 15.5 1.0 CG A:TYR4 4.8 13.5 1.0 O A:TYR4 4.8 17.7 1.0 CE2 A:TYR4 5.0 13.5 1.0

Sodium binding site 2 out of 2 in the Designed Protein KE59 R13 3/11H


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Designed Protein KE59 R13 3/11H within 5.0Å range: probe atom residue distance (Å) B Occ B:Na301 b:2.9 occ:1.00 N B:TYR4 3.8 16.7 1.0 CB B:ARG3 4.0 18.2 1.0 CD2 B:TYR4 4.1 15.4 1.0 CA B:ARG3 4.3 17.6 1.0 CB B:TYR4 4.4 15.3 1.0 C B:ARG3 4.6 17.4 1.0 CG B:ARG3 4.6 18.3 1.0 O B:TYR4 4.6 15.9 1.0 CA B:TYR4 4.7 15.4 1.0 CG B:TYR4 4.8 14.6 1.0 CD B:ARG3 4.8 23.6 1.0

O.Khersonsky, G.Kiss, D.Rothlisberger, O.Dym, S.Albeck, K.N.Houk, D.Baker, D.S.Tawfik. Bridging the Gaps in Design Methodologies By Evolutionary Optimization of the Stability and Proficiency of Designed Kemp Eliminase KE59. Proc.Natl.Acad.Sci.Usa V. 109 10358 2012.
ISSN: ISSN 0027-8424
PubMed: 22685214
DOI: 10.1073/PNAS.1121063109