Sodium in PDB 3qg6: Structural Basis For Ligand Recognition and Discrimination of A Quorum Quenching Antibody

The structure of Structural Basis For Ligand Recognition and Discrimination of A Quorum Quenching Antibody, PDB code: 3qg6 was solved by R.N.Kirchdoerfer, J.D.Janda, G.F.Kaufmann, I.A.Wilson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.74 / 2.50
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	68.360, 98.498, 73.670, 90.00, 114.03, 90.00
R / Rfree (%)	18.4 / 23.9

The structure of Structural Basis For Ligand Recognition and Discrimination of A Quorum Quenching Antibody also contains other interesting chemical elements:

Zinc

(Zn)

9 atoms

The binding sites of Sodium atom in the Structural Basis For Ligand Recognition and Discrimination of A Quorum Quenching Antibody (pdb code 3qg6). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Structural Basis For Ligand Recognition and Discrimination of A Quorum Quenching Antibody, PDB code: 3qg6:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Structural Basis For Ligand Recognition and Discrimination of A Quorum Quenching Antibody


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structural Basis For Ligand Recognition and Discrimination of A Quorum Quenching Antibody within 5.0Å range: probe atom residue distance (Å) B Occ A:Na215 b:34.0 occ:1.00 SG D:CYS4 3.9 28.8 1.0 CB D:CYS4 4.1 29.8 1.0 NE2 A:HIS27D 4.3 46.8 1.0 O A:THR91 4.4 26.1 1.0 O D:CYS4 4.5 27.4 1.0 CE1 A:TYR32 4.6 31.1 1.0 CZ A:TYR32 4.7 35.9 1.0 CD2 A:HIS27D 4.7 47.0 1.0 OH A:TYR96 4.7 19.3 1.0 CE1 A:HIS27D 4.9 47.5 1.0 O D:ILE7 4.9 25.4 1.0 OH A:TYR32 4.9 39.2 1.0 CD1 A:TYR32 5.0 29.4 1.0

Sodium binding site 2 out of 2 in the Structural Basis For Ligand Recognition and Discrimination of A Quorum Quenching Antibody


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structural Basis For Ligand Recognition and Discrimination of A Quorum Quenching Antibody within 5.0Å range: probe atom residue distance (Å) B Occ L:Na214 b:28.2 occ:1.00 SG C:CYS4 4.0 27.1 1.0 NE2 L:HIS27D 4.1 45.6 1.0 CB C:CYS4 4.1 32.5 1.0 O L:THR91 4.3 20.0 1.0 CZ L:TYR32 4.3 29.9 1.0 CD2 L:HIS27D 4.5 45.6 1.0 CE1 L:TYR32 4.5 26.8 1.0 OH L:TYR32 4.5 32.9 1.0 O C:CYS4 4.6 29.0 1.0 CE1 L:HIS27D 4.6 46.7 1.0 CE2 L:TYR32 4.6 29.4 1.0 O C:ILE7 4.8 15.0 1.0 OH L:TYR96 4.8 14.1 1.0 CD1 L:TYR32 4.9 26.2 1.0

R.N.Kirchdoerfer, A.L.Garner, C.E.Flack, J.M.Mee, A.R.Horswill, K.D.Janda, G.F.Kaufmann, I.A.Wilson. Structural Basis For Ligand Recognition and Discrimination of A Quorum-Quenching Antibody. J.Biol.Chem. V. 286 17351 2011.
ISSN: ISSN 0021-9258
PubMed: 21454495
DOI: 10.1074/JBC.M111.231258