Sodium in PDB 7d18: Crystal Structure of Acidobacteriales Bacterium Glutaminyl Cyclase

The structure of Crystal Structure of Acidobacteriales Bacterium Glutaminyl Cyclase, PDB code: 7d18 was solved by K.-F.Huang, J.-S.Huang, M.-L.Wu, W.-L.Hsieh, A.H.-J.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.91 / 1.33
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	37.044, 78.33, 44.892, 90, 111.15, 90
R / Rfree (%)	11.4 / 14

The structure of Crystal Structure of Acidobacteriales Bacterium Glutaminyl Cyclase also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Sodium atom in the Crystal Structure of Acidobacteriales Bacterium Glutaminyl Cyclase (pdb code 7d18). 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 Crystal Structure of Acidobacteriales Bacterium Glutaminyl Cyclase, PDB code: 7d18:

Sodium binding site 1 out of 1 in the Crystal Structure of Acidobacteriales Bacterium Glutaminyl Cyclase


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Acidobacteriales Bacterium Glutaminyl Cyclase within 5.0Å range: probe atom residue distance (Å) B Occ A:Na402 b:11.0 occ:1.00 O A:HOH754 2.3 21.3 1.0 OD2 A:ASP260 2.4 15.9 1.0 OD2 A:ASP202 2.4 15.6 1.0 O A:HOH597 2.4 23.8 1.0 O A:ASP204 2.4 17.6 1.0 O A:ASP262 2.4 15.9 1.0 OD1 A:ASP260 2.6 16.1 1.0 CG A:ASP260 2.8 14.8 1.0 CG A:ASP202 3.4 14.9 1.0 C A:ASP262 3.6 14.8 1.0 C A:ASP204 3.7 15.8 1.0 O A:HOH639 3.8 19.4 1.0 OD1 A:ASP202 4.0 15.5 1.0 N A:ASN206 4.2 13.9 1.0 CB A:ASP202 4.3 14.7 1.0 O A:HOH628 4.3 14.2 1.0 CB A:ASP262 4.3 17.0 1.0 CB A:ASP260 4.3 14.0 1.0 CA A:LEU205 4.4 13.3 1.0 CA A:ASP262 4.4 15.1 1.0 O A:HOH709 4.5 38.8 1.0 O A:HOH564 4.5 17.8 1.0 N A:LEU205 4.5 15.5 1.0 O A:HOH741 4.5 33.8 1.0 N A:TYR263 4.5 14.5 1.0 OD2 A:ASP204 4.5 31.0 1.0 CA A:TYR263 4.6 14.4 1.0 C A:LEU205 4.6 13.2 1.0 CB A:ASP204 4.6 19.7 1.0 N A:ASP262 4.6 14.5 1.0 CG A:ASP204 4.7 25.9 1.0 CA A:ASP204 4.7 16.9 1.0 O A:ASN206 4.8 14.4 1.0

K.F.Huang, J.S.Huang, M.L.Wu, W.L.Hsieh, K.C.Hsu, H.L.Hsu, T.P.Ko, A.H-J Wang. A Unique Carboxylic-Acid Hydrogen-Bond Network (Cahbn) Confers Glutaminyl Cyclase Activity on M28 Family Enzymes. J.Mol.Biol. 66960 2021.
ISSN: ESSN 1089-8638
PubMed: 33774034
DOI: 10.1016/J.JMB.2021.166960