Sodium in PDB 9azg: Native Nnha in H32

All present enzymatic activity of Native Nnha in H32:
3.5.99.9;

The structure of Native Nnha in H32, PDB code: 9azg was solved by T.S.Peat, J.Newman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.71 / 2.16
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	206.36, 206.36, 70.303, 90, 90, 120
R / Rfree (%)	16.8 / 20.7

The binding sites of Sodium atom in the Native Nnha in H32 (pdb code 9azg). 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 Native Nnha in H32, PDB code: 9azg:

Sodium binding site 1 out of 1 in the Native Nnha in H32


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Native Nnha in H32 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na403 b:46.9 occ:1.00 O A:GLN242 2.6 29.4 1.0 O A:HOH689 2.9 34.5 1.0 OD2 A:ASP281 2.9 35.9 1.0 OD1 A:ASP281 2.9 39.9 1.0 CG A:ASP281 3.3 34.7 1.0 CB A:ALA284 3.5 28.1 1.0 N A:ALA284 3.6 28.0 1.0 C A:GLN242 3.7 28.2 1.0 CA A:ALA284 3.9 28.0 1.0 CA A:LEU243 4.1 23.9 1.0 CB A:ASP283 4.3 31.2 1.0 N A:LEU243 4.3 24.4 1.0 O A:HOH666 4.3 30.8 1.0 C A:ASP283 4.5 31.6 1.0 C A:LEU243 4.5 27.0 1.0 CD A:ARG244 4.6 37.5 1.0 CG A:ARG244 4.6 34.4 1.0 N A:ARG244 4.7 25.1 1.0 CA A:GLN242 4.7 29.8 1.0 N A:GLN242 4.8 29.0 1.0 CB A:ASP281 4.8 32.7 1.0 CA A:ASP283 4.9 32.7 1.0 CD1 A:LEU241 4.9 25.6 1.0 CB A:ARG244 5.0 27.6 1.0

F.H.Ahmed, J.W.Liu, S.Royan, A.C.Warden, L.Esquirol, G.Pandey, J.Newman, C.Scott, T.S.Peat. Structural Insights Into the Enzymatic Breakdown of Azomycin-Derived Antibiotics By 2-Nitroimdazole Hydrolase (Nnha). Commun Biol V. 7 1676 2024.
ISSN: ESSN 2399-3642
PubMed: 39702827
DOI: 10.1038/S42003-024-07336-6