Sodium in PDB 8ahq: Vird/Holo-ACP5B of Streptomyces Virginiae Complex

The structure of Vird/Holo-ACP5B of Streptomyces Virginiae Complex, PDB code: 8ahq was solved by S.Collin, A.Gruez, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.85 / 2.10
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	144.878, 144.878, 88.781, 90, 90, 120
R / Rfree (%)	18.3 / 23.8

The structure of Vird/Holo-ACP5B of Streptomyces Virginiae Complex also contains other interesting chemical elements:

Chlorine

(Cl)

2 atoms

The binding sites of Sodium atom in the Vird/Holo-ACP5B of Streptomyces Virginiae Complex (pdb code 8ahq). 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 Vird/Holo-ACP5B of Streptomyces Virginiae Complex, PDB code: 8ahq:

Sodium binding site 1 out of 1 in the Vird/Holo-ACP5B of Streptomyces Virginiae Complex


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Vird/Holo-ACP5B of Streptomyces Virginiae Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Na307 b:41.4 occ:1.00 O A:HOH511 2.6 33.9 1.0 O A:HOH506 2.7 38.4 1.0 O A:HOH509 3.1 34.6 1.0 O A:ALA175 3.2 29.4 1.0 CA A:GLY176 3.5 29.3 1.0 CD2 A:LEU182 3.7 27.9 1.0 C A:ALA175 4.1 28.8 1.0 CD A:PRO177 4.1 30.0 1.0 N A:GLY176 4.3 28.9 1.0 O A:HOH427 4.6 35.1 1.0 O A:HOH468 4.6 43.3 1.0 C A:GLY176 4.8 28.8 1.0 O A:HOH485 4.9 37.6 1.0 N A:PRO177 4.9 29.7 1.0 CG A:LEU182 4.9 26.0 1.0 O A:HOH516 5.0 38.0 1.0

S.Collin, A.Gruez. Decrypting the Programming of Beta-Methylation in Virginiamycin M Biosynthesis Nat Commun 2023.
ISSN: ESSN 2041-1723