Zinc in PDB 1f2o: Crystal Structure of the Streptomyces Griseus Aminopeptidase Complexed with L-Leucine

The structure of Crystal Structure of the Streptomyces Griseus Aminopeptidase Complexed with L-Leucine, PDB code: 1f2o was solved by R.Gilboa, A.Spungin-Bialik, G.Wohlfahrt, 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)	30.00 / 1.70
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	61.990, 61.990, 146.870, 90.00, 90.00, 90.00
R / Rfree (%)	14.7 / 17.5

The structure of Crystal Structure of the Streptomyces Griseus Aminopeptidase Complexed with L-Leucine also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Zinc atom in the Crystal Structure of the Streptomyces Griseus Aminopeptidase Complexed with L-Leucine (pdb code 1f2o). 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 the Streptomyces Griseus Aminopeptidase Complexed with L-Leucine, PDB code: 1f2o:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of the Streptomyces Griseus Aminopeptidase Complexed with L-Leucine


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 the Streptomyces Griseus Aminopeptidase Complexed with L-Leucine within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn901 b:19.6 occ:1.00 NE2 A:HIS85 2.0 7.7 1.0 OD1 A:ASP160 2.1 9.0 1.0 OD1 A:ASP97 2.1 11.5 1.0 OXT A:LEU903 2.2 18.0 1.0 CG A:ASP160 2.8 8.6 1.0 OD2 A:ASP160 2.8 10.7 1.0 CE1 A:HIS85 3.0 10.5 1.0 C A:LEU903 3.0 23.1 1.0 CD2 A:HIS85 3.0 6.7 1.0 CG A:ASP97 3.2 14.6 1.0 OD2 A:ASP97 3.6 10.7 1.0 CA A:LEU903 3.7 24.9 1.0 ZN A:ZN902 3.8 13.1 1.0 O A:LEU903 3.8 17.2 1.0 CB A:LEU903 3.8 29.6 1.0 N A:LEU903 3.9 25.9 1.0 CB A:ASN98 3.9 8.2 1.0 OE1 A:GLU131 4.0 10.9 1.0 ND1 A:HIS85 4.1 9.5 1.0 CG A:HIS85 4.1 5.7 1.0 OE2 A:GLU132 4.2 14.4 1.0 CB A:ASP160 4.2 8.8 1.0 CG A:MET161 4.2 8.9 1.0 CB A:ASP97 4.3 7.4 1.0 CD A:GLU131 4.5 10.8 1.0 CG A:ASN98 4.5 8.1 1.0 CA A:ASP97 4.6 7.0 1.0 SD A:MET161 4.6 10.6 1.0 OE2 A:GLU131 4.6 15.4 1.0 C A:ASP97 4.8 8.7 1.0 CA A:ASP160 4.8 8.1 1.0 CA A:ASN98 4.9 7.7 1.0 N A:ASN98 4.9 8.3 1.0 C A:ASP160 4.9 10.2 1.0 ND2 A:ASN98 5.0 6.7 1.0 CD A:GLU132 5.0 14.9 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of the Streptomyces Griseus Aminopeptidase Complexed with L-Leucine


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 the Streptomyces Griseus Aminopeptidase Complexed with L-Leucine within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn902 b:13.1 occ:1.00 OD2 A:ASP97 2.0 10.7 1.0 NE2 A:HIS247 2.0 13.8 1.0 OE2 A:GLU132 2.0 14.4 1.0 O A:LEU903 2.1 17.2 1.0 OE1 A:GLU132 2.6 13.8 1.0 OXT A:LEU903 2.7 18.0 1.0 CD A:GLU132 2.7 14.9 1.0 C A:LEU903 2.7 23.1 1.0 CG A:ASP97 3.0 14.6 1.0 CD2 A:HIS247 3.0 13.3 1.0 CE1 A:HIS247 3.1 16.6 1.0 OD1 A:ASP97 3.3 11.5 1.0 ZN A:ZN901 3.8 19.6 1.0 O A:HOH303 3.9 13.9 1.0 CE1 A:TYR246 4.1 15.2 1.0 OH A:TYR246 4.1 20.6 1.0 ND1 A:HIS247 4.2 13.1 1.0 CG A:HIS247 4.2 13.7 1.0 CG A:GLU132 4.2 12.0 1.0 CA A:LEU903 4.2 24.9 1.0 CB A:ASP97 4.3 7.4 1.0 OE1 A:GLU131 4.5 10.9 1.0 CZ A:TYR246 4.5 19.0 1.0 CE1 A:HIS85 4.6 10.5 1.0 CG1 A:VAL89 4.7 12.5 1.0 NE2 A:HIS85 4.7 7.7 1.0 CB A:LEU903 4.7 29.6 1.0

R.Gilboa, A.Spungin-Bialik, G.Wohlfahrt, D.Schomburg, S.Blumberg, G.Shoham. Interactions of Streptomyces Griseus Aminopeptidase with Amino Acid Reaction Products and Their Implications Toward A Catalytic Mechanism. Proteins V. 44 490 2001.
ISSN: ISSN 0887-3585
PubMed: 11484227
DOI: 10.1002/PROT.1115