Zinc in PDB 5zum: Structure of Dipeptidyl-Peptidase III From Corallococcus Sp. Strain Egb

The structure of Structure of Dipeptidyl-Peptidase III From Corallococcus Sp. Strain Egb, PDB code: 5zum was solved by H.Zhang, Y.J.Duan, Z.K.Li, W.D.Liu, Y.Huang, Z.L.Cui, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.00 / 1.90
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	58.141, 77.850, 228.294, 90.00, 90.00, 90.00
R / Rfree (%)	17.4 / 22.4

The binding sites of Zinc atom in the Structure of Dipeptidyl-Peptidase III From Corallococcus Sp. Strain Egb (pdb code 5zum). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of Dipeptidyl-Peptidase III From Corallococcus Sp. Strain Egb, PDB code: 5zum:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of Dipeptidyl-Peptidase III From Corallococcus Sp. Strain Egb


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Dipeptidyl-Peptidase III From Corallococcus Sp. Strain Egb within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn601 b:28.1 occ:1.00 NE2 A:HIS388 2.1 16.8 1.0 OE1 A:GLU417 2.1 18.8 1.0 NE2 A:HIS384 2.2 19.6 1.0 O A:HOH1089 2.3 28.8 1.0 CD A:GLU417 2.8 17.4 1.0 OE2 A:GLU417 2.9 16.4 1.0 CD2 A:HIS388 3.0 15.6 1.0 CE1 A:HIS388 3.1 16.9 1.0 CD2 A:HIS384 3.1 17.4 1.0 CE1 A:HIS384 3.2 18.4 1.0 NE2 A:HIS465 4.0 32.3 1.0 CG A:HIS388 4.1 15.4 1.0 ND1 A:HIS388 4.2 16.5 1.0 CG A:GLU417 4.3 16.5 1.0 CG A:HIS384 4.3 14.8 1.0 ND1 A:HIS384 4.3 14.7 1.0 CD2 A:HIS465 4.4 26.5 1.0 OE2 A:GLU385 4.4 19.1 1.0 CB A:ALA420 4.5 17.4 1.0 OE1 A:GLU385 4.6 16.7 1.0 OH A:TYR247 4.6 30.1 1.0 CA A:GLU417 4.8 15.6 1.0 CB A:GLU417 4.8 15.9 1.0 CD A:GLU385 4.9 18.7 1.0 O A:HOH1006 5.0 27.9 1.0

Zinc binding site 2 out of 2 in the Structure of Dipeptidyl-Peptidase III From Corallococcus Sp. Strain Egb


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Dipeptidyl-Peptidase III From Corallococcus Sp. Strain Egb within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn601 b:30.6 occ:1.00 OE2 B:GLU417 1.9 19.0 1.0 NE2 B:HIS388 2.0 22.2 1.0 NE2 B:HIS384 2.1 21.6 1.0 CD B:GLU417 2.7 24.8 1.0 OE1 B:GLU417 2.9 21.6 1.0 CE1 B:HIS388 2.9 21.9 1.0 CD2 B:HIS388 3.0 21.1 1.0 CE1 B:HIS384 3.0 27.0 1.0 CD2 B:HIS384 3.1 22.8 1.0 ND1 B:HIS388 4.0 18.9 1.0 CG B:HIS388 4.1 20.2 1.0 NE2 B:HIS465 4.1 36.2 1.0 ND1 B:HIS384 4.2 20.2 1.0 CG B:GLU417 4.2 19.7 1.0 CG B:HIS384 4.2 20.5 1.0 CD2 B:HIS465 4.4 26.6 1.0 OE2 B:GLU385 4.5 20.4 1.0 CB B:ALA420 4.5 19.5 1.0 O B:HOH1059 4.5 44.0 1.0 OH B:TYR247 4.6 27.6 1.0 OE1 B:GLU385 4.6 20.5 1.0 CA B:GLU417 4.6 21.2 1.0 CB B:GLU417 4.7 21.5 1.0 CD B:GLU385 4.9 18.3 1.0 O B:HOH986 5.0 22.7 1.0

H.Zhang, Y.J.Duan, Z.K.Li, W.D.Liu, Y.Huang, Z.L.Cui. Structure of Dipeptidyl Peptidase III From Corallococcus Sp. Strain Egb To Be Published.