Zinc in PDB 1gzm: Structure of Bovine Rhodopsin in A Trigonal Crystal Form

The structure of Structure of Bovine Rhodopsin in A Trigonal Crystal Form, PDB code: 1gzm was solved by J.Li, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.00 / 2.65
Space group	P 31
Cell size a, b, c (Å), α, β, γ (°)	103.820, 103.820, 76.590, 90.00, 90.00, 120.00
R / Rfree (%)	20.2 / 23.5

The binding sites of Zinc atom in the Structure of Bovine Rhodopsin in A Trigonal Crystal Form (pdb code 1gzm). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of Bovine Rhodopsin in A Trigonal Crystal Form, PDB code: 1gzm:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of Bovine Rhodopsin in A Trigonal Crystal Form


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of Bovine Rhodopsin in A Trigonal Crystal Form within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1349 b:76.2 occ:0.54 ND2 A:ASN151 2.8 80.5 1.0 N A:GLY149 3.1 91.4 1.0 ND1 A:HIS152 3.2 72.4 1.0 CA A:GLY149 3.3 87.1 1.0 O A:ARG147 3.3 0.6 1.0 CB A:ASN151 3.5 76.5 1.0 C A:GLY149 3.6 83.6 1.0 CG A:ASN151 3.6 80.0 1.0 N A:ASN151 3.7 76.1 1.0 CE1 A:HIS152 3.8 72.4 1.0 N A:GLU150 4.0 81.7 1.0 N A:HIS152 4.0 67.1 1.0 O A:GLY149 4.0 82.2 1.0 CA A:ASN151 4.1 73.7 1.0 CG A:ARG147 4.2 0.8 1.0 CD A:ARG147 4.3 0.3 1.0 C A:ARG147 4.3 0.7 1.0 CG A:HIS152 4.3 69.5 1.0 C A:PHE148 4.4 93.9 1.0 NE A:ARG147 4.5 0.9 1.0 C A:ASN151 4.6 69.5 1.0 C A:GLU150 4.7 78.2 1.0 CB A:HIS152 4.8 66.7 1.0 OD1 A:ASN151 4.8 80.9 1.0 CB A:ARG147 4.8 0.3 1.0 CA A:PHE148 4.9 96.1 1.0 CA A:GLU150 4.9 80.3 1.0

Zinc binding site 2 out of 2 in the Structure of Bovine Rhodopsin in A Trigonal Crystal Form


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of Bovine Rhodopsin in A Trigonal Crystal Form within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1349 b:75.1 occ:0.54 ND2 B:ASN151 2.6 79.5 1.0 O B:ARG147 3.0 0.8 1.0 ND1 B:HIS152 3.2 74.0 1.0 N B:GLY149 3.3 89.3 1.0 CB B:ASN151 3.3 76.5 1.0 CG B:ASN151 3.4 79.4 1.0 CA B:GLY149 3.5 85.5 1.0 N B:ASN151 3.6 76.3 1.0 C B:GLY149 3.6 82.7 1.0 CE1 B:HIS152 3.8 73.3 1.0 N B:HIS152 3.9 68.5 1.0 CA B:ASN151 3.9 74.5 1.0 N B:GLU150 4.0 81.3 1.0 O B:GLY149 4.1 81.7 1.0 C B:ARG147 4.2 0.1 1.0 CG B:HIS152 4.3 71.5 1.0 C B:ASN151 4.4 71.2 1.0 C B:PHE148 4.5 91.4 1.0 OD1 B:ASN151 4.6 80.5 1.0 C B:GLU150 4.6 78.0 1.0 CB B:ARG147 4.6 0.7 1.0 CB B:HIS152 4.8 68.4 1.0 CG B:ARG147 4.8 0.1 1.0 CA B:GLU150 4.9 80.4 1.0 CA B:PHE148 4.9 93.6 1.0 CA B:HIS152 4.9 67.1 1.0 N B:PHE148 5.0 98.7 1.0

J.Li, P.Edwards, M.Burghammer, C.Villa, G.F.X.Schertler. Structure of Bovine Rhodopsin in A Trigonal Crystal Form J.Mol.Biol. V. 343 1409 2004.
ISSN: ISSN 0022-2836
PubMed: 15491621
DOI: 10.1016/J.JMB.2004.08.090