Sodium in PDB 4gk9: Crystal Structure of Burkholderia Oklahomensis Agglutinin (Boa) Bound to 3A,6A-Mannopentaose

The structure of Crystal Structure of Burkholderia Oklahomensis Agglutinin (Boa) Bound to 3A,6A-Mannopentaose, PDB code: 4gk9 was solved by M.J.Whitley, W.Furey, A.M.Gronenborn, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.10 / 1.90
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	75.622, 75.622, 132.321, 90.00, 90.00, 90.00
R / Rfree (%)	16.5 / 19.3

The binding sites of Sodium atom in the Crystal Structure of Burkholderia Oklahomensis Agglutinin (Boa) Bound to 3A,6A-Mannopentaose (pdb code 4gk9). 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 Crystal Structure of Burkholderia Oklahomensis Agglutinin (Boa) Bound to 3A,6A-Mannopentaose, PDB code: 4gk9:

Sodium binding site 1 out of 1 in the Crystal Structure of Burkholderia Oklahomensis Agglutinin (Boa) Bound to 3A,6A-Mannopentaose


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Burkholderia Oklahomensis Agglutinin (Boa) Bound to 3A,6A-Mannopentaose within 5.0Å range: probe atom residue distance (Å) B Occ A:Na321 b:31.2 occ:1.00 O A:HOH685 2.3 22.6 1.0 O A:HOH686 2.4 35.6 1.0 OD1 A:ASN240 2.4 25.9 1.0 O A:GLY238 2.4 24.8 1.0 O A:HOH688 2.5 34.6 1.0 O A:HOH687 2.5 30.4 1.0 C A:GLY238 3.4 25.5 1.0 CG A:ASN240 3.5 25.9 1.0 N A:ASN240 3.9 22.4 1.0 O A:HOH726 3.9 44.4 1.0 O A:HOH623 4.0 40.2 1.0 CB A:ASN240 4.0 20.9 1.0 O A:SER184 4.0 23.5 1.0 O A:HOH499 4.1 27.4 1.0 CA A:GLY238 4.3 30.8 1.0 N A:GLN239 4.3 25.0 1.0 CA A:GLN239 4.3 20.6 1.0 O A:HOH794 4.4 38.2 1.0 C A:GLN239 4.6 21.0 1.0 ND2 A:ASN240 4.6 25.7 1.0 CA A:ASN240 4.6 22.6 1.0 O A:HOH781 4.8 45.5 1.0

M.J.Whitley, W.Furey, S.Kollipara, A.M.Gronenborn. Burkholderia Oklahomensis Agglutinin Is A Canonical Two-Domain Oaa-Family Lectin: Structures, Carbohydrate Binding and Anti-Hiv Activity. Febs J. V. 280 2056 2013.
ISSN: ISSN 1742-464X
PubMed: 23480609
DOI: 10.1111/FEBS.12229