Sodium in PDB 8vdw: X-Ray Crystal Structure of the Biotin Synthase From V. Parvula

All present enzymatic activity of X-Ray Crystal Structure of the Biotin Synthase From V. Parvula:
2.8.1.6;

The structure of X-Ray Crystal Structure of the Biotin Synthase From V. Parvula, PDB code: 8vdw was solved by J.C.Lachowicz, T.L.Grove, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.60 / 1.81
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	47.465, 70.218, 195.85, 90, 90, 90
R / Rfree (%)	17.9 / 22.7

The structure of X-Ray Crystal Structure of the Biotin Synthase From V. Parvula also contains other interesting chemical elements:

Iron

(Fe)

16 atoms

The binding sites of Sodium atom in the X-Ray Crystal Structure of the Biotin Synthase From V. Parvula (pdb code 8vdw). 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 X-Ray Crystal Structure of the Biotin Synthase From V. Parvula, PDB code: 8vdw:

Sodium binding site 1 out of 1 in the X-Ray Crystal Structure of the Biotin Synthase From V. Parvula


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of X-Ray Crystal Structure of the Biotin Synthase From V. Parvula within 5.0Å range: probe atom residue distance (Å) B Occ A:Na405 b:24.6 occ:1.00 OD1 A:ASP55 2.7 18.3 1.0 N A:GLY306 2.9 17.4 1.0 O A:LEU303 2.9 16.9 1.0 NE A:ARG58 3.1 17.4 1.0 O A:LEU307 3.3 16.2 1.0 CA A:GLY306 3.4 18.9 1.0 N A:GLY305 3.5 17.6 1.0 C A:GLY306 3.6 16.8 1.0 C A:LEU303 3.6 16.6 1.0 CG A:ASP55 3.8 17.9 1.0 CG A:ARG58 3.8 16.6 1.0 N A:LEU307 3.8 16.2 1.0 CB A:ARG58 3.8 16.7 1.0 CA A:ASP55 3.8 16.7 1.0 CA A:LYS304 3.8 16.5 1.0 C A:LYS304 3.8 16.4 1.0 O A:HOH637 3.8 17.4 1.0 NH2 A:ARG58 3.8 17.0 1.0 CZ A:ARG58 3.9 17.1 1.0 CD A:ARG58 3.9 16.5 1.0 C A:GLY305 4.0 18.6 1.0 N A:LYS304 4.1 15.4 1.0 CB A:ASP55 4.1 18.5 1.0 O A:GLY306 4.2 17.2 1.0 CA A:GLY305 4.2 18.0 1.0 C A:LEU307 4.3 17.3 1.0 O A:ALA302 4.3 16.9 1.0 CA A:LEU303 4.5 17.2 1.0 N A:ASP55 4.6 17.1 1.0 O A:LYS304 4.6 16.7 1.0 O A:ASP55 4.6 17.2 1.0 O A:ALA54 4.6 16.3 1.0 CA A:LEU307 4.6 16.7 1.0 C A:ASP55 4.7 17.4 1.0 OD2 A:ASP55 4.8 18.6 1.0 C A:ALA54 4.9 16.2 1.0

J.C.Lachowicz, T.L.Grove. X-Ray Crystal Structure of the Biotin Synthase From V. Parvula To Be Published.