Sodium in PDB 5u23: X-Ray Structure of the Wlarg Aminotransferase From Campylobacter Jejuni in Complex with Tdp-QUI3N

The structure of X-Ray Structure of the Wlarg Aminotransferase From Campylobacter Jejuni in Complex with Tdp-QUI3N, PDB code: 5u23 was solved by H.M.Holden, J.B.Thoden, G.T.Dow, M.Gilbert, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.92 / 1.45
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	107.824, 56.644, 124.549, 90.00, 90.01, 90.00
R / Rfree (%)	12.7 / 15.3

The structure of X-Ray Structure of the Wlarg Aminotransferase From Campylobacter Jejuni in Complex with Tdp-QUI3N also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Sodium atom in the X-Ray Structure of the Wlarg Aminotransferase From Campylobacter Jejuni in Complex with Tdp-QUI3N (pdb code 5u23). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the X-Ray Structure of the Wlarg Aminotransferase From Campylobacter Jejuni in Complex with Tdp-QUI3N, PDB code: 5u23:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the X-Ray Structure of the Wlarg Aminotransferase From Campylobacter Jejuni in Complex with Tdp-QUI3N


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of X-Ray Structure of the Wlarg Aminotransferase From Campylobacter Jejuni in Complex with Tdp-QUI3N within 5.0Å range: probe atom residue distance (Å) B Occ C:Na401 b:5.8 occ:1.00 O C:HOH738 2.0 7.8 1.0 O D:HOH645 2.1 9.8 1.0 O D:HOH690 2.1 5.9 1.0 O D:HOH531 2.2 7.0 1.0 O C:HOH642 2.2 7.1 1.0 O C:HOH526 2.3 6.6 1.0 O D:HOH726 4.0 5.4 1.0 O C:HOH721 4.0 6.8 1.0 OD2 D:ASP230 4.1 5.6 1.0 O C:HOH756 4.2 9.4 1.0 OD2 C:ASP230 4.2 6.2 1.0 O C:ASP191 4.2 5.6 1.0 O D:HOH703 4.2 6.6 1.0 O D:ASP191 4.3 6.2 1.0 OD1 D:ASP230 4.3 5.4 1.0 OD1 C:ASP230 4.3 7.0 1.0 CG D:ASP230 4.4 6.1 1.0 CG C:ASP230 4.5 5.5 1.0 O D:ARG228 4.7 4.4 1.0 O C:ALA56 4.7 6.0 1.0 O D:ALA56 4.7 5.3 1.0 O C:ARG228 4.7 6.4 1.0 CB C:ASP191 4.8 4.0 1.0 CB D:ASP191 4.8 5.4 1.0 CB D:ALA56 4.9 7.1 1.0 CB C:ALA56 5.0 4.8 1.0

Sodium binding site 2 out of 2 in the X-Ray Structure of the Wlarg Aminotransferase From Campylobacter Jejuni in Complex with Tdp-QUI3N


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of X-Ray Structure of the Wlarg Aminotransferase From Campylobacter Jejuni in Complex with Tdp-QUI3N within 5.0Å range: probe atom residue distance (Å) B Occ B:Na401 b:5.3 occ:1.00 O B:HOH742 2.0 8.6 1.0 O A:HOH647 2.1 8.7 1.0 O A:HOH706 2.1 7.4 1.0 O A:HOH535 2.2 7.1 1.0 O B:HOH534 2.2 7.1 1.0 O B:HOH558 2.2 6.8 1.0 O A:HOH747 4.0 9.2 1.0 O B:HOH703 4.1 8.8 1.0 O B:HOH744 4.1 9.5 1.0 OD2 B:ASP230 4.1 7.1 1.0 OD2 A:ASP230 4.2 5.7 1.0 O A:HOH758 4.2 7.5 1.0 O B:ASP191 4.2 6.9 1.0 O A:ASP191 4.3 7.7 1.0 OD1 A:ASP230 4.3 6.9 1.0 OD1 B:ASP230 4.4 6.5 1.0 CG B:ASP230 4.5 7.9 1.0 CG A:ASP230 4.6 5.5 1.0 O B:ARG228 4.7 5.0 1.0 O A:ARG228 4.7 6.0 1.0 O B:ALA56 4.7 5.5 1.0 CB B:ASP191 4.7 6.3 1.0 O A:ALA56 4.8 5.9 1.0 CB A:ASP191 4.8 4.6 1.0 CB B:ALA56 4.9 4.9 1.0 C B:ASP191 5.0 6.1 1.0

G.T.Dow, M.Gilbert, J.B.Thoden, H.M.Holden. Structural Investigation on Wlarg From Campylobacter Jejuni: A Sugar Aminotransferase. Protein Sci. V. 26 586 2017.
ISSN: ESSN 1469-896X
PubMed: 28028852
DOI: 10.1002/PRO.3109