Zinc in PDB 3bkf: Zinc-Bound C-Terminal Domain of Nikr

The structure of Zinc-Bound C-Terminal Domain of Nikr, PDB code: 3bkf was solved by C.M.Phillips, E.R.Schreiter, C.L.Drennan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.00 / 1.90
Space group	P 62 2 2
Cell size a, b, c (Å), α, β, γ (°)	46.220, 46.220, 124.900, 90.00, 90.00, 120.00
R / Rfree (%)	25 / 27.3

The binding sites of Zinc atom in the Zinc-Bound C-Terminal Domain of Nikr (pdb code 3bkf). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Zinc-Bound C-Terminal Domain of Nikr, PDB code: 3bkf:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Zinc-Bound C-Terminal Domain of Nikr


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Zinc-Bound C-Terminal Domain of Nikr within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn500 b:46.2 occ:0.25 NE2 A:HIS89 2.2 60.6 1.0 CD2 A:HIS89 2.6 58.8 1.0 CB A:CYS95 2.7 43.5 1.0 SG A:CYS95 3.1 46.5 1.0 CE1 A:HIS89 3.4 61.4 1.0 CG A:HIS89 3.8 57.9 1.0 CA A:CYS95 3.9 41.8 1.0 ZN A:ZN501 4.0 48.5 0.6 ND1 A:HIS89 4.2 60.6 1.0 N A:CYS95 4.4 46.1 1.0 C A:ASP94 4.9 50.9 1.0 O A:ASP94 5.0 50.4 1.0

Zinc binding site 2 out of 2 in the Zinc-Bound C-Terminal Domain of Nikr


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Zinc-Bound C-Terminal Domain of Nikr within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn501 b:48.5 occ:0.57 ND1 A:HIS87 2.0 39.1 1.0 OE1 A:GLU97 2.3 46.0 1.0 SG A:CYS95 2.3 46.5 1.0 CG A:HIS87 3.0 37.0 1.0 CE1 A:HIS87 3.0 41.4 1.0 CD A:GLU97 3.0 44.3 1.0 CG A:GLU97 3.1 38.9 1.0 CB A:HIS87 3.3 32.9 1.0 CB A:CYS95 3.5 43.5 1.0 ZN A:ZN500 4.0 46.2 0.2 NE2 A:HIS87 4.1 41.6 1.0 OE2 A:GLU97 4.1 44.0 1.0 CD2 A:HIS87 4.1 39.1 1.0 CA A:HIS87 4.1 32.1 1.0 CB A:GLU97 4.5 34.0 1.0 CA A:CYS95 4.8 41.8 1.0 O A:LEU96 4.9 30.6 1.0 C A:CYS95 5.0 38.6 1.0 C A:HIS87 5.0 33.6 1.0

C.M.Phillips, E.R.Schreiter, Y.Guo, S.C.Wang, D.B.Zamble, C.L.Drennan. Structural Basis of the Metal Specificity For Nickel Regulatory Protein Nikr. Biochemistry V. 47 1938 2008.
ISSN: ISSN 0006-2960
PubMed: 18193897
DOI: 10.1021/BI702006H