Zinc in PDB 5ehh: Structure of Human DPP3 in Complex with Endomorphin-2.

All present enzymatic activity of Structure of Human DPP3 in Complex with Endomorphin-2.:
3.4.14.4;

The structure of Structure of Human DPP3 in Complex with Endomorphin-2., PDB code: 5ehh was solved by P.Kumar, V.Reithofer, M.Reisinger, T.Pavkov-Keller, S.Wallner, P.Macheroux, K.Gruber, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.09 / 2.38
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	120.035, 105.457, 64.719, 90.00, 93.49, 90.00
R / Rfree (%)	19.4 / 23.7

The structure of Structure of Human DPP3 in Complex with Endomorphin-2. also contains other interesting chemical elements:

Magnesium	(Mg)	2 atoms
Potassium	(K)	1 atom

The binding sites of Zinc atom in the Structure of Human DPP3 in Complex with Endomorphin-2. (pdb code 5ehh). 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 Structure of Human DPP3 in Complex with Endomorphin-2., PDB code: 5ehh:

Zinc binding site 1 out of 1 in the Structure of Human DPP3 in Complex with Endomorphin-2.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Human DPP3 in Complex with Endomorphin-2. within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn801 b:49.3 occ:0.90 OE1 A:GLU508 2.0 32.9 1.0 NE2 A:HIS450 2.0 40.6 1.0 O B:PRO2 2.0 43.7 0.8 NE2 A:HIS455 2.1 41.6 1.0 CD2 A:HIS450 2.8 39.1 1.0 CD A:GLU508 3.0 31.9 1.0 CE1 A:HIS455 3.0 38.4 1.0 CD2 A:HIS455 3.0 39.2 1.0 CE1 A:HIS450 3.1 38.4 1.0 C B:PRO2 3.2 40.7 0.8 OE2 A:GLU508 3.7 35.5 1.0 O B:TYR1 3.7 38.7 0.8 CG A:HIS450 4.0 38.1 1.0 C B:TYR1 4.0 39.5 0.8 CB B:PHE3 4.0 43.2 0.8 CA B:PHE3 4.0 45.5 0.8 N B:PHE3 4.1 44.0 0.8 CG A:GLU508 4.1 33.7 1.0 ND1 A:HIS450 4.1 37.5 1.0 ND1 A:HIS455 4.1 35.9 1.0 CG A:HIS455 4.2 36.4 1.0 N B:PRO2 4.3 43.1 0.8 CA B:PRO2 4.3 40.8 0.8 NE2 A:HIS568 4.3 39.5 1.0 CG B:PHE3 4.4 45.9 0.8 CB B:TYR1 4.5 38.6 0.8 CD1 B:PHE3 4.5 45.8 0.8 CA B:TYR1 4.8 37.5 0.8 CD2 A:HIS568 4.9 34.7 1.0 CB A:ALA511 5.0 32.8 1.0 OH A:TYR318 5.0 40.5 1.0

P.Kumar, V.Reithofer, M.Reisinger, S.Wallner, T.Pavkov-Keller, P.Macheroux, K.Gruber. Substrate Complexes of Human Dipeptidyl Peptidase III Reveal the Mechanism of Enzyme Inhibition. Sci Rep V. 6 23787 2016.
ISSN: ESSN 2045-2322
PubMed: 27025154
DOI: 10.1038/SREP23787