Zinc in PDB 1tf8: Streptomyces Griseus Aminopeptidase Complexed with L-Tryptophan

The structure of Streptomyces Griseus Aminopeptidase Complexed with L-Tryptophan, PDB code: 1tf8 was solved by V.Reiland, R.Gilboa, A.Spungin-Bialik, D.Schomburg, Y.Shoham, S.Blumberg, G.Shoham, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 1.30
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	61.339, 61.339, 144.964, 90.00, 90.00, 90.00
R / Rfree (%)	12.6 / 17.4

The structure of Streptomyces Griseus Aminopeptidase Complexed with L-Tryptophan also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Zinc atom in the Streptomyces Griseus Aminopeptidase Complexed with L-Tryptophan (pdb code 1tf8). 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 L-Tryptophan, PDB code: 1tf8:
Jump to Zinc binding site number: 1; 2;

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


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 L-Tryptophan within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn901 b:15.7 occ:1.00 NE2 A:HIS85 1.9 8.3 1.0 OD1 A:ASP160 2.0 9.3 1.0 OD1 A:ASP97 2.0 11.4 1.0 O A:TRP913 2.1 11.9 0.8 CG A:ASP160 2.8 9.1 1.0 C A:TRP913 2.8 11.0 0.8 OD2 A:ASP160 2.9 9.9 1.0 CE1 A:HIS85 2.9 9.3 1.0 CD2 A:HIS85 3.0 8.0 1.0 CG A:ASP97 3.1 9.1 1.0 CA A:TRP913 3.5 12.9 0.8 CB A:TRP913 3.5 17.3 0.8 OXT A:TRP913 3.6 11.8 0.8 OD2 A:ASP97 3.6 11.8 1.0 N A:TRP913 3.7 11.7 0.8 ZN A:ZN902 3.7 10.5 1.0 OE1 A:GLU131 4.0 11.7 1.0 CB A:ASN98 4.0 8.1 1.0 ND1 A:HIS85 4.1 8.1 1.0 CG A:HIS85 4.1 8.3 1.0 OE2 A:GLU132 4.1 11.0 1.0 CG A:MET161 4.2 9.2 1.0 CB A:ASP160 4.2 8.7 1.0 CB A:ASP97 4.4 7.9 1.0 CD A:GLU131 4.5 9.8 1.0 SD A:MET161 4.5 9.4 1.0 OE2 A:GLU131 4.6 11.8 1.0 CG A:ASN98 4.6 7.2 1.0 CA A:ASP97 4.6 7.8 1.0 CA A:ASP160 4.8 8.6 1.0 C A:ASP160 4.8 7.9 1.0 C A:ASP97 4.8 8.0 1.0 CG A:TRP913 4.9 18.0 0.8 CA A:ASN98 5.0 7.6 1.0 N A:ASN98 5.0 7.6 1.0 CD A:GLU132 5.0 9.4 1.0

Zinc binding site 2 out of 2 in the Streptomyces Griseus Aminopeptidase Complexed with L-Tryptophan


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 L-Tryptophan within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn902 b:10.5 occ:1.00 OXT A:TRP913 1.8 11.8 0.8 OD2 A:ASP97 2.0 11.8 1.0 OE2 A:GLU132 2.0 11.0 1.0 NE2 A:HIS247 2.0 11.5 1.0 C A:TRP913 2.6 11.0 0.8 O A:TRP913 2.7 11.9 0.8 CD A:GLU132 2.7 9.4 1.0 OE1 A:GLU132 2.8 11.5 1.0 CG A:ASP97 3.0 9.1 1.0 CD2 A:HIS247 3.0 9.4 1.0 CE1 A:HIS247 3.0 14.1 1.0 OD1 A:ASP97 3.3 11.4 1.0 ZN A:ZN901 3.7 15.7 1.0 CE1 A:TYR246 3.9 11.2 1.0 O A:HOH1013 3.9 11.6 1.0 O A:HOH1444 4.0 43.5 1.0 CA A:TRP913 4.1 12.9 0.8 OH A:TYR246 4.1 17.5 1.0 CG A:GLU132 4.1 10.0 1.0 ND1 A:HIS247 4.1 14.5 1.0 CG A:HIS247 4.2 9.7 1.0 CB A:ASP97 4.3 7.9 1.0 CZ A:TYR246 4.3 13.5 1.0 OE1 A:GLU131 4.5 11.7 1.0 CE1 A:HIS85 4.5 9.3 1.0 CB A:TRP913 4.6 17.3 0.8 CG1 A:VAL89 4.6 9.9 1.0 NE2 A:HIS85 4.6 8.3 1.0 CD1 A:TYR246 4.8 11.1 1.0

V.Reiland, R.Gilboa, A.Spungin-Bialik, D.Schomburg, Y.Shoham, S.Blumberg, G.Shoham. Binding of Inhibitory Aromatic Amino Acids to Streptomyces Griseus Aminopeptidase. Acta Crystallogr.,Sect.D V. 60 1738 2004.
ISSN: ISSN 0907-4449
PubMed: 15388919
DOI: 10.1107/S0907444904018281