Sodium in PDB 4fha: Structure of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae,Bound to Pyruvate and Lysine

All present enzymatic activity of Structure of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae,Bound to Pyruvate and Lysine:
4.2.1.52;

The structure of Structure of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae,Bound to Pyruvate and Lysine, PDB code: 4fha was solved by M.A.Perugini, C.Dogovski, M.W.Parker, M.A.Gorman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.91 / 1.88
Space group	P 2 21 21
Cell size a, b, c (Å), α, β, γ (°)	60.381, 106.368, 106.232, 90.00, 90.00, 90.00
R / Rfree (%)	15.9 / 18.3

The binding sites of Sodium atom in the Structure of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae,Bound to Pyruvate and Lysine (pdb code 4fha). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Structure of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae,Bound to Pyruvate and Lysine, PDB code: 4fha:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Structure of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae,Bound to Pyruvate and Lysine


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae,Bound to Pyruvate and Lysine within 5.0Å range: probe atom residue distance (Å) B Occ A:Na402 b:19.5 occ:1.00 O A:ALA159 2.2 19.7 1.0 O A:HIS161 2.2 19.5 1.0 O A:ILE164 2.2 19.1 1.0 O A:HOH655 2.3 25.1 1.0 C A:HIS161 3.3 19.8 1.0 C A:ALA159 3.3 19.6 1.0 C A:ILE164 3.4 19.2 1.0 O A:HOH533 3.8 21.3 1.0 N A:HIS161 4.0 20.4 1.0 C A:ASP160 4.1 20.9 1.0 N A:ILE164 4.1 19.1 1.0 N A:PRO162 4.1 19.7 1.0 CA A:PRO162 4.2 19.7 1.0 CA A:ALA159 4.2 19.4 1.0 CA A:ILE164 4.2 19.2 1.0 CA A:HIS161 4.2 20.0 1.0 N A:ASP160 4.3 20.2 1.0 C A:PRO162 4.3 19.5 1.0 CA A:ASP160 4.4 21.0 1.0 N A:ILE165 4.5 19.3 1.0 O A:ASP160 4.5 21.1 1.0 CB A:ILE164 4.5 19.0 1.0 CD1 A:PHE187 4.6 21.9 1.0 O A:PRO162 4.6 19.7 1.0 O A:LEU158 4.6 19.1 1.0 CA A:ILE165 4.6 19.1 1.0 O A:GLU186 4.7 24.2 1.0 N A:ASN163 4.8 19.3 1.0 CB A:HIS161 5.0 19.9 1.0

Sodium binding site 2 out of 2 in the Structure of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae,Bound to Pyruvate and Lysine


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae,Bound to Pyruvate and Lysine within 5.0Å range: probe atom residue distance (Å) B Occ B:Na402 b:20.8 occ:1.00 O B:HIS161 2.2 20.9 1.0 O B:ILE164 2.2 18.7 1.0 O B:ALA159 2.2 21.5 1.0 O B:HOH666 2.3 24.1 1.0 O B:HOH638 2.5 22.8 1.0 C B:ALA159 3.3 21.6 1.0 C B:HIS161 3.3 21.1 1.0 C B:ILE164 3.4 18.0 1.0 N B:HIS161 3.9 21.9 1.0 C B:ASP160 4.0 22.7 1.0 N B:ILE164 4.1 18.1 1.0 CA B:ILE164 4.2 18.1 1.0 O B:HOH656 4.2 23.4 1.0 CA B:ALA159 4.2 21.0 1.0 N B:ASP160 4.2 22.4 1.0 CA B:HIS161 4.2 21.6 1.0 N B:PRO162 4.2 20.5 1.0 CA B:PRO162 4.3 20.0 1.0 CA B:ASP160 4.3 22.8 1.0 C B:PRO162 4.4 19.5 1.0 O B:ASP160 4.4 22.4 1.0 CB B:ILE164 4.4 17.9 1.0 N B:ILE165 4.5 17.6 1.0 CD1 B:PHE187 4.6 19.5 1.0 O B:PRO162 4.6 19.7 1.0 O B:LEU158 4.6 20.5 1.0 CA B:ILE165 4.7 17.4 1.0 O B:GLU186 4.7 21.6 1.0 N B:ASN163 4.8 19.1 1.0 CB B:HIS161 4.9 21.5 1.0 O B:GLU185 5.0 22.5 1.0

M.A.Perugini, C.Dogovski, M.W.Parker, M.A.Gorman, R.C.J.Dobson, G.B.Jameson, N.E.Ketaren, J.Praszkier, M.F.Bailey, G.Bryant, J.Yang, M.D.W.Griffin, F.G.Pearce, V.Mitsakos. Structure, Function, Stability and Knockout Phenotype of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae To Be Published.