Sodium in PDB 3i6v: Crystal Structure of A Periplasmic His/Glu/Gln/Arg/Opine Family- Binding Protein From Silicibacter Pomeroyi in Complex with Lysine

The structure of Crystal Structure of A Periplasmic His/Glu/Gln/Arg/Opine Family- Binding Protein From Silicibacter Pomeroyi in Complex with Lysine, PDB code: 3i6v was solved by J.B.Bonanno, M.Rutter, K.T.Bain, S.Miller, R.Romero, J.M.Sauder, S.K.Burley, S.C.Almo, New York Sgx Research Center For Structuralgenomics (Nysgxrc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.00
Space group	P 43 2 2
Cell size a, b, c (Å), α, β, γ (°)	70.931, 70.931, 141.359, 90.00, 90.00, 90.00
R / Rfree (%)	19.8 / 22.4

The binding sites of Sodium atom in the Crystal Structure of A Periplasmic His/Glu/Gln/Arg/Opine Family- Binding Protein From Silicibacter Pomeroyi in Complex with Lysine (pdb code 3i6v). 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 A Periplasmic His/Glu/Gln/Arg/Opine Family- Binding Protein From Silicibacter Pomeroyi in Complex with Lysine, PDB code: 3i6v:

Sodium binding site 1 out of 1 in the Crystal Structure of A Periplasmic His/Glu/Gln/Arg/Opine Family- Binding Protein From Silicibacter Pomeroyi in Complex with Lysine


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 A Periplasmic His/Glu/Gln/Arg/Opine Family- Binding Protein From Silicibacter Pomeroyi in Complex with Lysine within 5.0Å range: probe atom residue distance (Å) B Occ A:Na279 b:17.7 occ:1.00 O A:ASP125 2.2 17.6 1.0 OE2 A:GLU232 2.4 20.4 1.0 OD1 A:ASP125 2.4 22.5 1.0 OD1 A:ASP129 2.4 22.6 1.0 O A:ILE128 2.4 17.1 1.0 C A:ASP125 3.2 18.9 1.0 CG A:ASP125 3.3 23.3 1.0 C A:ILE128 3.3 17.7 1.0 CD A:GLU232 3.4 21.1 1.0 CG A:ASP129 3.6 21.1 1.0 CA A:ASP125 3.6 19.1 1.0 CG A:GLU232 3.7 18.4 1.0 N A:ASP129 4.0 17.2 1.0 CB A:ASP125 4.0 18.8 1.0 CA A:ASP129 4.0 18.8 1.0 OD2 A:ASP125 4.1 24.4 1.0 N A:ILE128 4.1 17.9 1.0 CA A:ILE128 4.3 18.0 1.0 N A:GLU126 4.4 19.5 1.0 CB A:ASP129 4.4 17.9 1.0 O A:HOH27 4.5 23.0 1.0 OD2 A:ASP129 4.5 25.5 1.0 OE1 A:GLU232 4.5 20.7 1.0 O A:HOH302 4.6 37.5 1.0 C A:GLU126 4.6 20.2 1.0 N A:VAL127 4.7 19.4 1.0 C A:VAL127 4.7 19.5 1.0 CA A:GLU126 4.8 20.0 1.0 O A:ARG124 4.9 17.5 1.0 N A:ASP125 5.0 18.4 1.0 CB A:GLU232 5.0 20.7 1.0 O A:GLU126 5.0 20.2 1.0

J.B.Bonanno, M.Rutter, K.T.Bain, S.Miller, R.Romero, J.M.Sauder, S.K.Burley, S.C.Almo. Crystal Structure of A Periplasmic His/Glu/Gln/Arg/Opine Family-Binding Protein From Silicibacter Pomeroyi in Complex with Lysine To Be Published.