Sodium in PDB 5u20: X-Ray Structure of the Wlarg Aminotransferase From Campylobacter Jejuni, Internal Plp-Aldimine

The structure of X-Ray Structure of the Wlarg Aminotransferase From Campylobacter Jejuni, Internal Plp-Aldimine, PDB code: 5u20 was solved by J.B.Thoden, H.M.Holden, G.T.Dow, M.Gilbert, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 1.50
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	108.120, 56.621, 124.407, 90.00, 89.92, 90.00
R / Rfree (%)	14.1 / 17.8

The structure of X-Ray Structure of the Wlarg Aminotransferase From Campylobacter Jejuni, Internal Plp-Aldimine 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, Internal Plp-Aldimine (pdb code 5u20). 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, Internal Plp-Aldimine, PDB code: 5u20:
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, Internal Plp-Aldimine


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, Internal Plp-Aldimine within 5.0Å range: probe atom residue distance (Å) B Occ A:Na401 b:8.4 occ:1.00 O B:HOH588 2.1 8.8 1.0 O A:HOH629 2.1 12.9 1.0 O B:HOH582 2.2 8.2 1.0 O B:HOH420 2.2 7.6 1.0 O A:HOH646 2.2 7.5 1.0 O A:HOH508 2.3 8.3 1.0 O B:HOH587 4.0 6.8 1.0 O A:HOH694 4.1 11.3 1.0 OD2 B:ASP230 4.1 7.3 1.0 OD2 A:ASP230 4.1 8.8 1.0 O A:HOH711 4.2 10.0 1.0 O A:ASP191 4.2 6.7 1.0 O B:ASP191 4.2 6.9 1.0 O B:HOH610 4.2 11.8 1.0 OD1 A:ASP230 4.3 8.5 1.0 OD1 B:ASP230 4.4 6.8 1.0 CG A:ASP230 4.5 8.0 1.0 CG B:ASP230 4.5 7.9 1.0 O A:ALA56 4.7 7.9 1.0 O A:ARG228 4.7 8.8 1.0 O B:ARG228 4.7 5.9 1.0 O B:ALA56 4.8 7.5 1.0 CB A:ASP191 4.8 6.0 1.0 CB B:ASP191 4.8 6.3 1.0 CB B:ALA56 4.9 6.9 1.0 C B:ASP191 4.9 5.7 1.0 C A:ASP191 4.9 5.3 1.0 CB A:ALA56 5.0 9.3 1.0

Sodium binding site 2 out of 2 in the X-Ray Structure of the Wlarg Aminotransferase From Campylobacter Jejuni, Internal Plp-Aldimine


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, Internal Plp-Aldimine within 5.0Å range: probe atom residue distance (Å) B Occ D:Na401 b:8.7 occ:1.00 O C:HOH533 2.1 10.8 1.0 O D:HOH645 2.1 11.3 1.0 O C:HOH557 2.1 12.0 1.0 O D:HOH654 2.2 9.8 1.0 O D:HOH515 2.2 5.4 1.0 O C:HOH445 2.2 9.2 1.0 O C:HOH609 4.0 9.6 1.0 OD2 D:ASP230 4.1 7.9 1.0 O D:HOH691 4.1 7.8 1.0 OD2 C:ASP230 4.1 9.5 1.0 O D:HOH705 4.2 11.7 1.0 O C:ASP191 4.2 7.2 1.0 O D:ASP191 4.2 7.9 1.0 O C:HOH596 4.2 10.9 1.0 OD1 C:ASP230 4.3 7.8 1.0 OD1 D:ASP230 4.4 10.3 1.0 CG C:ASP230 4.5 6.9 1.0 CG D:ASP230 4.5 10.8 1.0 O C:ARG228 4.7 10.5 1.0 CB D:ASP191 4.7 6.2 1.0 O C:ALA56 4.7 7.5 1.0 CB C:ASP191 4.7 5.0 1.0 O D:ARG228 4.8 8.7 1.0 O D:ALA56 4.8 10.7 1.0 CB D:ALA56 4.9 8.2 1.0 C D:ASP191 5.0 7.2 1.0 C C:ASP191 5.0 6.3 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