Sodium in PDB 3d7r: Crystal Structure of A Putative Esterase From Staphylococcus Aureus

The structure of Crystal Structure of A Putative Esterase From Staphylococcus Aureus, PDB code: 3d7r was solved by R.Lam, K.P.Battaile, T.Chan, V.Romanov, K.Lam, M.Soloveychik, J.Wu-Brown, E.F.Pai, N.Y.Chirgadze, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.56 / 2.01
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	41.888, 46.412, 91.688, 80.82, 89.97, 69.51
R / Rfree (%)	15.8 / 19.2

The structure of Crystal Structure of A Putative Esterase From Staphylococcus Aureus also contains other interesting chemical elements:

Bromine	(Br)	2 atoms
Chlorine	(Cl)	2 atoms

The binding sites of Sodium atom in the Crystal Structure of A Putative Esterase From Staphylococcus Aureus (pdb code 3d7r). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of A Putative Esterase From Staphylococcus Aureus, PDB code: 3d7r:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of A Putative Esterase From Staphylococcus Aureus


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 Putative Esterase From Staphylococcus Aureus within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1200 b:15.8 occ:1.00 OE1 A:GLN136 2.3 20.8 1.0 O A:HOH1510 2.9 23.0 1.0 CD A:GLN136 3.0 19.1 1.0 NE2 A:GLN136 3.1 19.7 1.0 NH2 A:ARG68 3.1 12.2 1.0 NE A:ARG68 3.5 11.6 1.0 CG1 A:VAL66 3.6 11.4 1.0 CZ A:ARG68 3.8 12.7 1.0 CB A:VAL66 3.9 10.7 1.0 CG2 A:VAL66 4.2 9.2 1.0 CD1 A:LEU59 4.2 15.6 1.0 CG A:GLN136 4.4 15.1 1.0 CG2 A:VAL133 4.6 8.7 1.0 CB A:LEU59 4.6 13.5 1.0 CD A:ARG68 4.8 12.5 1.0 CB A:LEU61 4.8 17.6 1.0 CG1 A:VAL111 5.0 6.8 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of A Putative Esterase From Staphylococcus Aureus


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of A Putative Esterase From Staphylococcus Aureus within 5.0Å range: probe atom residue distance (Å) B Occ B:Na1201 b:15.3 occ:1.00 OE1 B:GLN136 2.6 20.8 1.0 O B:HOH1510 2.8 21.2 1.0 NH2 B:ARG68 3.1 12.8 1.0 NE2 B:GLN136 3.1 21.0 1.0 CD B:GLN136 3.2 20.0 1.0 NE B:ARG68 3.4 10.2 1.0 CG1 B:VAL66 3.6 10.6 1.0 CZ B:ARG68 3.7 12.4 1.0 CB B:VAL66 3.8 10.8 1.0 CD1 B:LEU59 4.0 16.8 1.0 CG2 B:VAL66 4.1 9.4 1.0 CB B:LEU59 4.5 15.3 1.0 CG B:GLN136 4.6 16.1 1.0 CD B:ARG68 4.7 12.6 1.0 CG2 B:VAL133 4.7 9.7 1.0 CB B:LEU61 4.8 18.1 1.0 CG B:ARG68 4.9 9.6 1.0 CG B:LEU59 4.9 15.6 1.0

K.P.Battaile, R.Lam, T.Chan, V.Romanov, K.Lam, M.Soloveychik, J.Wu-Brown, E.F.Pai, N.Y.Chirgadze. Crystal Structure of A Putative Esterase From Staphylococcus Aureus To Be Published.