Zinc in PDB 6qql: Crystal Structure of Porphyromonas Gingivalis Glutaminyl Cyclase

The structure of Crystal Structure of Porphyromonas Gingivalis Glutaminyl Cyclase, PDB code: 6qql was solved by M.Linnert, A.Piechotta, C.Parthier, N.Taudte, P.Kolenko, J.Rahfeld, J.Potempa, M.T.Stubbs, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.95 / 2.81
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	89.904, 89.904, 164.696, 90.00, 90.00, 120.00
R / Rfree (%)	21.7 / 27.6

The binding sites of Zinc atom in the Crystal Structure of Porphyromonas Gingivalis Glutaminyl Cyclase (pdb code 6qql). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Porphyromonas Gingivalis Glutaminyl Cyclase, PDB code: 6qql:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Porphyromonas Gingivalis Glutaminyl Cyclase


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 Porphyromonas Gingivalis Glutaminyl Cyclase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:92.8 occ:1.00 OD2 A:ASP183 1.8 68.5 1.0 OD2 A:ASP149 1.9 54.0 1.0 NE2 A:HIS299 2.1 44.5 1.0 CG A:ASP183 2.3 56.6 1.0 OD1 A:ASP183 2.3 60.0 1.0 CG A:ASP149 2.8 31.2 1.0 CE1 A:HIS299 3.0 36.6 1.0 OD1 A:ASP149 3.0 45.0 1.0 O A:HOH540 3.0 23.5 1.0 CD2 A:HIS299 3.1 39.9 1.0 NE1 A:TRP298 3.8 18.8 1.0 CB A:ASP183 3.8 49.1 1.0 CB A:ASP149 4.1 21.5 1.0 ND1 A:HIS299 4.1 32.6 1.0 CG A:HIS299 4.2 30.0 1.0 CD1 A:TRP298 4.3 18.7 1.0 O A:HOH513 4.3 15.9 1.0 OE1 A:GLU182 4.5 34.0 1.0 NE2 A:HIS124 4.8 19.2 1.0 CA A:ASP183 4.9 42.9 1.0 CB A:ARG128 4.9 16.7 1.0 CD A:ARG128 4.9 24.6 1.0 CE2 A:TRP298 4.9 41.7 1.0 OE2 A:GLU182 5.0 37.6 1.0 CE1 A:HIS124 5.0 20.0 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Porphyromonas Gingivalis Glutaminyl Cyclase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Porphyromonas Gingivalis Glutaminyl Cyclase within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn401 b:66.7 occ:1.00 OD2 B:ASP183 2.1 57.3 1.0 OD2 B:ASP149 2.1 57.8 1.0 NE2 B:HIS299 2.2 66.4 1.0 OD1 B:ASP183 2.5 53.1 1.0 CG B:ASP183 2.6 44.2 1.0 CG B:ASP149 2.8 46.1 1.0 OD1 B:ASP149 2.9 39.6 1.0 CE1 B:HIS299 3.1 66.2 1.0 CD2 B:HIS299 3.2 69.3 1.0 NE1 B:TRP298 3.3 35.6 1.0 O B:HOH513 3.6 11.7 1.0 CD1 B:TRP298 3.8 44.4 1.0 CB B:ASP183 4.1 42.3 1.0 ND1 B:HIS299 4.1 67.6 1.0 CG B:HIS299 4.2 69.2 1.0 CB B:ASP149 4.3 24.2 1.0 OE1 B:GLU182 4.4 51.2 1.0 CE2 B:TRP298 4.5 38.7 1.0 OE2 B:GLU182 4.6 62.5 1.0 NE2 B:HIS124 4.8 32.5 1.0 CE1 B:HIS124 4.9 28.1 1.0 SD B:MET219 4.9 27.9 1.0 CD B:GLU182 5.0 55.0 1.0

N.Taudte, M.Linnert. Identification of A Mammalian Like Type II Glutaminyl Cyclases in the Oral Pathogenic Bacteria P. Gingivalis, T. Forsythia and P. Intermedia To Be Published.