Zinc in PDB 3wuh: QRI7 and Amp Complex

The structure of QRI7 and Amp Complex, PDB code: 3wuh was solved by T.Tominaga, K.Kobayashi, R.Ishii, R.Ishitani, O.Nureki, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.01 / 2.94
Space group	P 43 3 2
Cell size a, b, c (Å), α, β, γ (°)	180.315, 180.315, 180.315, 90.00, 90.00, 90.00
R / Rfree (%)	22.3 / 27.3

The binding sites of Zinc atom in the QRI7 and Amp Complex (pdb code 3wuh). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the QRI7 and Amp Complex, PDB code: 3wuh:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the QRI7 and Amp Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of QRI7 and Amp Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn501 b:0.8 occ:1.00 OD1 A:ASP361 2.2 0.7 1.0 NE2 A:HIS145 2.2 72.4 1.0 NE2 A:HIS175 2.4 0.8 1.0 NE2 A:HIS149 2.4 73.1 1.0 CD2 A:HIS175 2.9 0.5 1.0 CE1 A:HIS145 3.0 70.3 1.0 CG A:ASP361 3.2 0.4 1.0 O A:HOH601 3.2 87.8 1.0 CD2 A:HIS149 3.3 69.8 1.0 CD2 A:HIS145 3.4 73.6 1.0 CE1 A:HIS149 3.5 82.9 1.0 OD2 A:ASP361 3.5 0.3 1.0 CE1 A:HIS175 3.6 0.0 1.0 CG A:HIS175 4.2 93.8 1.0 ND1 A:HIS145 4.2 65.7 1.0 CG A:HIS145 4.4 72.7 1.0 ND1 A:HIS175 4.5 99.6 1.0 CG A:HIS149 4.5 68.1 1.0 CB A:ASP361 4.5 0.8 1.0 ND1 A:HIS149 4.6 77.8 1.0 CE A:MET365 4.8 69.9 1.0 CA A:ASP361 4.9 0.8 1.0 OG A:SER172 5.0 0.7 1.0

Zinc binding site 2 out of 2 in the QRI7 and Amp Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of QRI7 and Amp Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn501 b:89.3 occ:1.00 OD1 B:ASP361 2.1 0.1 1.0 NE2 B:HIS145 2.2 62.2 1.0 O B:HOH601 2.3 96.3 1.0 NE2 B:HIS149 2.4 77.4 1.0 NE2 B:HIS175 2.5 0.6 1.0 CD2 B:HIS175 2.7 0.0 1.0 CG B:ASP361 2.9 94.4 1.0 OD2 B:ASP361 3.0 0.8 1.0 CE1 B:HIS145 3.1 68.7 1.0 CE1 B:HIS149 3.2 76.3 1.0 CD2 B:HIS145 3.3 60.2 1.0 CD2 B:HIS149 3.4 76.1 1.0 CE1 B:HIS175 3.8 0.3 1.0 CG B:HIS175 4.0 99.2 1.0 ND1 B:HIS145 4.3 60.2 1.0 ND1 B:HIS149 4.3 77.1 1.0 CB B:ASP361 4.4 66.4 1.0 CG B:HIS145 4.4 55.8 1.0 CG B:HIS149 4.4 59.7 1.0 OG B:SER172 4.5 0.5 1.0 ND1 B:HIS175 4.6 0.3 1.0 CA B:ASP361 4.9 59.7 1.0

T.Tominaga, K.Kobayashi, R.Ishii, R.Ishitani, O.Nureki. Structure of Saccharomyces Cerevisiae Mitochondrial QRI7 in Complex with Amp Acta Crystallogr.,Sect.F V. 70 1009 2014.
ISSN: ISSN 2053-230X
PubMed: 25084372
DOI: 10.1107/S2053230X14014046