Zinc in PDB 1qq9: Streptomyces Griseus Aminopeptidase Complexed with Methionine

The structure of Streptomyces Griseus Aminopeptidase Complexed with Methionine, PDB code: 1qq9 was solved by R.Gilboa, H.M.Greenblatt, M.Perach, A.Spungin-Bialik, U.Lessel, D.Schomburg, S.Blumberg, G.Shoham, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	32.00 / 1.53
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	61.830, 61.830, 146.610, 90.00, 90.00, 90.00
R / Rfree (%)	14.8 / 17.3

The structure of Streptomyces Griseus Aminopeptidase Complexed with Methionine also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Zinc atom in the Streptomyces Griseus Aminopeptidase Complexed with Methionine (pdb code 1qq9). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Streptomyces Griseus Aminopeptidase Complexed with Methionine, PDB code: 1qq9:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Streptomyces Griseus Aminopeptidase Complexed with Methionine


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Streptomyces Griseus Aminopeptidase Complexed with Methionine within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn901 b:17.0 occ:1.00 NE2 A:HIS85 2.0 8.2 1.0 OD1 A:ASP160 2.0 9.6 1.0 OD1 A:ASP97 2.1 10.3 1.0 OXT A:MET903 2.2 18.4 1.0 CG A:ASP160 2.7 10.5 1.0 OD2 A:ASP160 2.8 11.5 1.0 CE1 A:HIS85 2.9 10.4 1.0 C A:MET903 2.9 21.4 1.0 CD2 A:HIS85 3.0 7.9 1.0 CG A:ASP97 3.1 10.6 1.0 CA A:MET903 3.6 21.6 1.0 OD2 A:ASP97 3.6 10.6 1.0 CB A:MET903 3.6 27.1 1.0 N A:MET903 3.6 20.6 1.0 O A:MET903 3.7 16.3 1.0 ZN A:ZN902 3.8 11.7 1.0 CB A:ASN98 3.9 7.3 1.0 OE1 A:GLU131 4.0 10.7 1.0 ND1 A:HIS85 4.0 8.7 1.0 OE2 A:GLU132 4.1 13.8 1.0 CG A:HIS85 4.1 6.3 1.0 CB A:ASP160 4.2 8.3 1.0 CG A:MET161 4.2 9.1 1.0 CB A:ASP97 4.3 8.2 1.0 CD A:GLU131 4.5 11.6 1.0 CG A:ASN98 4.5 7.2 1.0 CA A:ASP97 4.6 6.6 1.0 OE2 A:GLU131 4.6 14.5 1.0 SD A:MET161 4.6 11.2 1.0 CA A:ASP160 4.8 7.2 1.0 C A:ASP97 4.8 7.6 1.0 C A:ASP160 4.9 9.2 1.0 CA A:ASN98 4.9 6.7 1.0 N A:ASN98 4.9 6.8 1.0 CD A:GLU132 5.0 12.9 1.0 ND2 A:ASN98 5.0 7.0 1.0

Zinc binding site 2 out of 2 in the Streptomyces Griseus Aminopeptidase Complexed with Methionine


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Streptomyces Griseus Aminopeptidase Complexed with Methionine within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn902 b:11.7 occ:1.00 O A:MET903 2.0 16.3 1.0 OD2 A:ASP97 2.0 10.6 1.0 OE2 A:GLU132 2.0 13.8 1.0 NE2 A:HIS247 2.1 11.9 1.0 OE1 A:GLU132 2.7 13.4 1.0 C A:MET903 2.7 21.4 1.0 CD A:GLU132 2.7 12.9 1.0 OXT A:MET903 2.7 18.4 1.0 CG A:ASP97 3.0 10.6 1.0 CD2 A:HIS247 3.0 11.1 1.0 CE1 A:HIS247 3.1 13.4 1.0 OD1 A:ASP97 3.4 10.3 1.0 ZN A:ZN901 3.8 17.0 1.0 O A:HOH303 3.8 11.9 1.0 CE1 A:TYR246 4.0 14.5 1.0 O A:HOH578 4.1 38.4 1.0 OH A:TYR246 4.1 18.8 1.0 CA A:MET903 4.1 21.6 1.0 CG A:GLU132 4.1 11.9 1.0 ND1 A:HIS247 4.2 13.1 1.0 CG A:HIS247 4.2 10.0 1.0 CB A:ASP97 4.2 8.2 1.0 CZ A:TYR246 4.5 17.9 1.0 OE1 A:GLU131 4.5 10.7 1.0 CE1 A:HIS85 4.6 10.4 1.0 CB A:MET903 4.7 27.1 1.0 CG1 A:VAL89 4.7 14.3 1.0 NE2 A:HIS85 4.7 8.2 1.0 CD1 A:TYR246 5.0 11.3 1.0

R.Gilboa, H.M.Greenblatt, M.Perach, A.Spungin-Bialik, U.Lessel, G.Wohlfahrt, D.Schomburg, S.Blumberg, G.Shoham. Interactions of Streptomyces Griseus Aminopeptidase with A Methionine Product Analogue: A Structural Study at 1.53 A Resolution. Acta Crystallogr.,Sect.D V. 56 551 2000.
ISSN: ISSN 0907-4449
PubMed: 10771423
DOI: 10.1107/S0907444900002420