Zinc in PDB 4k25: Crystal Structure of Yeast QRI7 Homodimer

The structure of Crystal Structure of Yeast QRI7 Homodimer, PDB code: 4k25 was solved by D.Neculai, L.Wan, D.Y.Mao, F.Sicheri, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.58 / 2.88
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	64.597, 130.983, 47.866, 90.00, 90.00, 90.00
R / Rfree (%)	24 / 29.5

The structure of Crystal Structure of Yeast QRI7 Homodimer also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Zinc atom in the Crystal Structure of Yeast QRI7 Homodimer (pdb code 4k25). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of Yeast QRI7 Homodimer, PDB code: 4k25:

Zinc binding site 1 out of 1 in the Crystal Structure of Yeast QRI7 Homodimer


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 Yeast QRI7 Homodimer within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn601 b:78.5 occ:0.31 OD1 A:ASP361 2.2 76.4 1.0 NE2 A:HIS145 2.3 65.6 1.0 OD2 A:ASP361 2.6 83.7 1.0 CG A:ASP361 2.7 77.5 1.0 NE2 A:HIS149 3.2 65.0 1.0 CD2 A:HIS145 3.2 65.5 1.0 CE1 A:HIS145 3.2 65.8 1.0 NE2 A:HIS175 3.7 77.5 1.0 CE1 A:HIS149 3.9 64.8 1.0 CB A:ASP361 4.2 69.6 1.0 CD2 A:HIS149 4.2 65.2 1.0 CG A:HIS145 4.4 64.0 1.0 ND1 A:HIS145 4.4 66.3 1.0 CD2 A:HIS175 4.5 77.5 1.0 CE1 A:HIS175 4.6 77.7 1.0 SG A:CYS42 4.8 57.9 0.4

L.C.Wan, D.Y.Mao, D.Neculai, J.Strecker, D.Chiovitti, I.Kurinov, G.Poda, N.Thevakumaran, F.Yuan, R.K.Szilard, E.Lissina, C.Nislow, A.A.Caudy, D.Durocher, F.Sicheri. Reconstitution and Characterization of Eukaryotic N6-Threonylcarbamoylation of Trna Using A Minimal Enzyme System. Nucleic Acids Res. V. 41 6332 2013.
ISSN: ISSN 0305-1048
PubMed: 23620299
DOI: 10.1093/NAR/GKT322