Zinc in PDB 9d60: Crystal Structure of Zn(II)-Bound Polysaccharide Deacetylase From Bacteroides Ovatus

The structure of Crystal Structure of Zn(II)-Bound Polysaccharide Deacetylase From Bacteroides Ovatus, PDB code: 9d60 was solved by O.E.Adamek, K.J.Mclaughlin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.69 / 1.36
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	69.295, 73.112, 95.385, 90, 90, 90
R / Rfree (%)	16.5 / 17.7

The binding sites of Zinc atom in the Crystal Structure of Zn(II)-Bound Polysaccharide Deacetylase From Bacteroides Ovatus (pdb code 9d60). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of Zn(II)-Bound Polysaccharide Deacetylase From Bacteroides Ovatus, PDB code: 9d60:

Zinc binding site 1 out of 1 in the Crystal Structure of Zn(II)-Bound Polysaccharide Deacetylase From Bacteroides Ovatus


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Zn(II)-Bound Polysaccharide Deacetylase From Bacteroides Ovatus within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn505 b:12.8 occ:0.21 O A:HOH728 2.3 24.2 1.0 NE2 A:HIS213 2.4 10.7 1.0 OD1 A:ASP102 2.4 21.0 1.0 O A:HOH654 2.4 21.6 1.0 O1 A:GOL503 2.5 17.0 1.0 O2 A:GOL503 2.6 18.1 1.0 CG A:ASP102 3.3 16.9 1.0 CE1 A:HIS213 3.3 14.3 1.0 CD2 A:HIS213 3.3 12.0 1.0 C2 A:GOL503 3.4 21.2 1.0 C1 A:GOL503 3.4 17.7 1.0 OD2 A:ASP102 3.6 25.6 1.0 NE2 A:HIS337 4.1 26.6 1.0 OD2 A:ASP214 4.2 18.9 1.0 CB A:ASP101 4.2 9.2 1.0 O A:HOH674 4.3 30.3 1.0 OD2 A:ASP101 4.3 13.2 1.0 OD1 A:ASN254 4.4 20.8 1.0 ND1 A:HIS213 4.4 11.7 1.0 CG A:HIS213 4.5 8.9 1.0 CD2 A:HIS337 4.5 19.6 1.0 CA A:PRO253 4.7 9.9 1.0 CB A:ASP102 4.7 14.1 1.0 CB A:PRO253 4.7 11.3 1.0 N A:ASP102 4.7 8.8 1.0 N A:ASN254 4.7 13.1 1.0 CG A:ASP101 4.7 9.6 1.0 C3 A:GOL503 4.9 23.7 1.0 CA A:ASP102 4.9 9.2 1.0

L.A.Schwartz, J.O.Norman, S.Hasan, O.E.Adamek, E.Dzuong, J.C.Lowenstein, O.G.Yost, B.Sankaran, K.J.Mclaughlin. Carbohydrate Deacetylase Unique to Gut Microbe Bacteroides Reveals Atypical Structure. Biochemistry 2024.
ISSN: ISSN 0006-2960
PubMed: 39663570
DOI: 10.1021/ACS.BIOCHEM.4C00519