Sodium in PDB 6m8m: PA14 Sugar-Binding Domain From Rtx Adhesin

The structure of PA14 Sugar-Binding Domain From Rtx Adhesin, PDB code: 6m8m was solved by T.D.R.Vance, B.Conroy, P.L.Davies, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.55 / 1.20
Space group	P 2 21 21
Cell size a, b, c (Å), α, β, γ (°)	32.575, 61.309, 79.519, 90.00, 90.00, 90.00
R / Rfree (%)	14 / 15.9

The structure of PA14 Sugar-Binding Domain From Rtx Adhesin also contains other interesting chemical elements:

Calcium

(Ca)

3 atoms

The binding sites of Sodium atom in the PA14 Sugar-Binding Domain From Rtx Adhesin (pdb code 6m8m). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the PA14 Sugar-Binding Domain From Rtx Adhesin, PDB code: 6m8m:

Sodium binding site 1 out of 1 in the PA14 Sugar-Binding Domain From Rtx Adhesin


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of PA14 Sugar-Binding Domain From Rtx Adhesin within 5.0Å range: probe atom residue distance (Å) B Occ A:Na305 b:7.3 occ:1.00 O A:HOH523 2.3 16.0 1.0 O A:HOH515 2.4 20.4 1.0 O A:HOH479 2.4 20.6 1.0 O A:HOH616 2.4 17.2 1.0 O A:HOH417 2.4 16.7 1.0 O A:HOH460 2.4 13.8 1.0 O A:HOH459 2.5 25.7 1.0 HZ A:PHE63 4.0 9.8 1.0 OE2 A:GLU109 4.3 16.1 1.0 O A:HOH419 4.4 24.7 1.0 O A:HOH436 4.5 15.1 1.0 O A:HOH431 4.5 17.0 1.0 O A:ALA44 4.5 10.9 1.0 O A:HOH528 4.6 25.0 1.0 OD2 A:ASP50 4.6 8.7 1.0 OE1 A:GLU109 4.7 21.1 1.0 OD1 A:ASP70 4.7 16.7 1.0 O A:HOH406 4.7 20.7 1.0 OD1 A:ASP50 4.7 9.2 1.0 OD1 A:ASN67 4.8 15.7 1.0 CD A:GLU109 4.8 16.6 1.0 HB3 A:ALA44 4.8 8.4 1.0 CZ A:PHE63 4.9 8.2 1.0 OD2 A:ASP70 5.0 9.5 1.0

T.D.R.Vance, S.Assaie-Ardakany, B.Conroy, P.L.Davies. Adhesin Sugar-Binding Domain Affinity Purification, Structure, and Ligand Analysis To Be Published.