Sodium in PDB 2y8u: A. Nidulans Chitin Deacetylase

The structure of A. Nidulans Chitin Deacetylase, PDB code: 2y8u was solved by G.Penman, L.M.Gay, D.M.F.Van Aalten, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	84.90 / 1.99
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	35.640, 64.520, 86.540, 90.00, 101.16, 90.00
R / Rfree (%)	15.7 / 20.5

The structure of A. Nidulans Chitin Deacetylase also contains other interesting chemical elements:

Cobalt	(Co)	2 atoms
Chlorine	(Cl)	2 atoms

The binding sites of Sodium atom in the A. Nidulans Chitin Deacetylase (pdb code 2y8u). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the A. Nidulans Chitin Deacetylase, PDB code: 2y8u:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the A. Nidulans Chitin Deacetylase


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of A. Nidulans Chitin Deacetylase within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1240 b:40.4 occ:1.00 CG A:ARG86 3.8 27.6 1.0 O A:GLY82 3.8 24.8 1.0 N A:ARG86 4.2 22.9 1.0 CB A:GLN85 4.3 23.0 1.0 OE1 A:GLN85 4.4 24.2 1.0 C A:GLY82 4.6 24.4 1.0 CA A:ARG86 4.6 24.8 1.0 OD2 A:ASP89 4.6 38.6 1.0 CA A:GLY82 4.6 25.3 1.0 CB A:ARG86 4.8 24.3 1.0 C A:GLN85 4.8 22.3 1.0 CD A:ARG86 4.9 28.7 1.0

Sodium binding site 2 out of 3 in the A. Nidulans Chitin Deacetylase


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of A. Nidulans Chitin Deacetylase within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1241 b:44.6 occ:1.00 NA A:NA1244 1.2 43.1 1.0 O A:HOH2003 2.9 25.0 1.0 N A:THR34 3.4 17.3 1.0 OG1 A:THR34 3.6 20.9 1.0 N A:GLN35 3.7 19.0 1.0 CA A:ILE33 4.0 17.1 1.0 C A:ILE33 4.2 17.3 1.0 CB A:GLN35 4.2 21.6 1.0 O A:VAL32 4.3 19.9 1.0 CA A:THR34 4.3 18.3 1.0 CG2 A:ILE33 4.3 17.4 1.0 O A:GLN35 4.4 20.3 1.0 C A:THR34 4.5 18.2 1.0 CA A:GLN35 4.5 18.4 1.0 CB A:THR34 4.6 19.2 1.0 CB A:ILE33 4.6 16.5 1.0 CG A:GLN35 4.8 18.8 1.0 C A:GLN35 5.0 19.7 1.0

Sodium binding site 3 out of 3 in the A. Nidulans Chitin Deacetylase


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of A. Nidulans Chitin Deacetylase within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1244 b:43.1 occ:1.00 NA A:NA1241 1.2 44.6 1.0 OG1 A:THR34 3.5 20.9 1.0 O A:HOH2003 3.9 25.0 1.0 N A:THR34 4.1 17.3 1.0 O A:VAL32 4.4 19.9 1.0 N A:GLN35 4.5 19.0 1.0 CB A:THR34 4.7 19.2 1.0 CA A:ILE33 4.7 17.1 1.0 CB A:GLN35 4.7 21.6 1.0 CA A:THR34 4.8 18.3 1.0 C A:ILE33 4.9 17.3 1.0

Z.Liu, B.Westereng, G.Methiese, D.M.F.Van Aalten, S.J.Horn, G.Vaaje-Kolstad, V.G.H.Eijsink. Cloning and Characterization of A Broad-Specificity Chitin Deacetylase From Aspergillus Nidulans Fgsc A4 To Be Published.