Sodium in PDB 6i98: Structure of the Ferrioxamine B Transporter Foxa From Pseudomonas Aeruginosa, Apo State

The structure of Structure of the Ferrioxamine B Transporter Foxa From Pseudomonas Aeruginosa, Apo State, PDB code: 6i98 was solved by I.Josts, H.Tidow, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	151.17 / 2.80
Space group	P 63 2 2
Cell size a, b, c (Å), α, β, γ (°)	174.554, 174.554, 180.245, 90.00, 90.00, 120.00
R / Rfree (%)	21.3 / 26

The structure of Structure of the Ferrioxamine B Transporter Foxa From Pseudomonas Aeruginosa, Apo State also contains other interesting chemical elements:

Nickel

(Ni)

1 atom

The binding sites of Sodium atom in the Structure of the Ferrioxamine B Transporter Foxa From Pseudomonas Aeruginosa, Apo State (pdb code 6i98). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Structure of the Ferrioxamine B Transporter Foxa From Pseudomonas Aeruginosa, Apo State, PDB code: 6i98:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Structure of the Ferrioxamine B Transporter Foxa From Pseudomonas Aeruginosa, Apo State


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of the Ferrioxamine B Transporter Foxa From Pseudomonas Aeruginosa, Apo State within 5.0Å range: probe atom residue distance (Å) B Occ A:Na925 b:54.4 occ:1.00 O A:ASN370 3.5 49.3 1.0 CB A:GLU340 3.9 63.0 1.0 O A:GLU341 3.9 53.7 1.0 OD2 A:ASP368 4.1 62.9 1.0 CG A:ASP368 4.2 59.7 1.0 N A:GLU341 4.2 53.9 1.0 NH2 A:ARG342 4.4 53.5 1.0 CB A:ASP368 4.5 54.5 1.0 CA A:GLU340 4.5 57.0 1.0 C A:GLU341 4.6 51.5 1.0 C A:ASN370 4.7 50.8 1.0 CA A:GLY371 4.7 53.2 1.0 OD1 A:ASP368 4.7 73.7 1.0 CZ A:ARG342 4.7 53.0 1.0 C A:GLU340 4.8 53.5 1.0 CG A:GLU340 4.8 65.7 1.0 NE A:ARG342 4.8 52.4 1.0 CD A:GLU340 4.8 68.6 1.0 OE1 A:GLN250 4.9 50.7 1.0 C A:GLY371 4.9 53.2 1.0 NH2 A:ARG407 4.9 61.1 1.0 CB A:ARG342 4.9 48.5 1.0

Sodium binding site 2 out of 2 in the Structure of the Ferrioxamine B Transporter Foxa From Pseudomonas Aeruginosa, Apo State


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of the Ferrioxamine B Transporter Foxa From Pseudomonas Aeruginosa, Apo State within 5.0Å range: probe atom residue distance (Å) B Occ A:Na926 b:69.5 occ:1.00 O A:LYS263 2.7 59.6 1.0 OE2 A:GLU628 2.8 61.1 1.0 NE2 A:GLN177 2.8 55.4 1.0 N A:THR178 3.3 48.9 1.0 CD A:GLU628 3.4 62.9 1.0 OE1 A:GLU628 3.4 69.8 1.0 C A:LYS263 3.5 57.5 1.0 NE2 A:GLN626 3.6 50.4 1.0 CB A:GLN177 3.7 53.8 1.0 CA A:GLN177 3.9 53.0 1.0 CD A:GLN177 3.9 55.8 1.0 C A:GLN177 4.1 50.3 1.0 CB A:LYS263 4.1 67.1 1.0 CB A:THR178 4.1 52.2 1.0 CA A:LYS263 4.1 61.5 1.0 N A:LYS263 4.2 59.5 1.0 CA A:THR178 4.2 50.9 1.0 O A:THR178 4.2 51.2 1.0 OG1 A:THR178 4.3 52.2 1.0 CG A:GLN177 4.3 54.4 1.0 NH1 A:ARG222 4.4 59.1 1.0 N A:GLY264 4.5 54.7 1.0 CD1 A:LEU262 4.6 50.1 1.0 CD A:GLN626 4.6 48.9 1.0 CG A:GLU628 4.7 61.2 1.0 C A:THR178 4.7 49.1 1.0 CA A:GLY264 4.7 54.7 1.0 NH2 A:ARG222 4.7 60.8 1.0 OE1 A:GLN626 4.8 47.7 1.0 CB A:GLU628 4.9 55.5 1.0 CZ A:ARG222 4.9 55.0 1.0 OE1 A:GLN177 5.0 60.7 1.0

I.Josts, K.Veith, H.Tidow. Ternary Structure of the Outer Membrane Transporter Foxa with Resolved Signalling Domain Provides Insights Into Tonb-Mediated Siderophore Uptake. Elife V. 8 2019.
ISSN: ESSN 2050-084X
PubMed: 31385808
DOI: 10.7554/ELIFE.48528