Zinc in PDB 2ds8: Structure of the Zbd-Xb Complex

The structure of Structure of the Zbd-Xb Complex, PDB code: 2ds8 was solved by E.Y.Park, B.G.Lee, S.B.Hong, H.W.Kim, H.K.Song, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 1.60
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	32.554, 46.548, 57.037, 90.00, 90.00, 90.00
R / Rfree (%)	20.1 / 22.6

The binding sites of Zinc atom in the Structure of the Zbd-Xb Complex (pdb code 2ds8). 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 the Zbd-Xb Complex, PDB code: 2ds8:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of the Zbd-Xb Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of the Zbd-Xb Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn100 b:14.0 occ:1.00 SG A:CYS39 2.3 13.8 1.0 SG A:CYS14 2.4 12.0 1.0 SG A:CYS36 2.4 14.1 1.0 SG A:CYS17 2.4 15.0 1.0 CB A:CYS14 3.2 13.2 1.0 CB A:CYS17 3.3 14.4 1.0 CB A:CYS39 3.3 13.0 1.0 CB A:CYS36 3.5 11.0 1.0 N A:CYS17 3.7 13.9 1.0 N A:CYS36 3.9 9.9 1.0 N A:CYS39 4.0 14.2 1.0 CA A:CYS17 4.1 14.5 1.0 O A:HOH107 4.1 25.5 1.0 CA A:CYS36 4.2 12.6 1.0 CA A:CYS39 4.2 15.1 1.0 O A:HOH115 4.5 26.4 1.0 CB A:PHE16 4.5 11.9 1.0 CA A:CYS14 4.6 12.7 1.0 C A:PHE16 4.7 13.6 1.0 O A:CYS36 4.7 13.7 1.0 C A:CYS36 4.7 12.9 1.0 C A:CYS17 4.9 15.2 1.0 CA A:PHE16 5.0 13.4 1.0 N A:GLY18 5.0 13.7 1.0

Zinc binding site 2 out of 2 in the Structure of the Zbd-Xb Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of the Zbd-Xb Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn100 b:15.6 occ:1.00 SG B:CYS39 2.3 16.1 1.0 SG B:CYS14 2.4 13.0 1.0 SG B:CYS17 2.4 15.6 1.0 SG B:CYS36 2.4 15.2 1.0 CB B:CYS17 3.2 15.6 1.0 CB B:CYS14 3.3 14.1 1.0 CB B:CYS39 3.4 13.7 1.0 CB B:CYS36 3.5 15.0 1.0 N B:CYS17 3.6 16.4 1.0 N B:CYS36 3.8 12.9 1.0 CA B:CYS17 4.0 17.1 1.0 N B:CYS39 4.0 16.0 1.0 O B:HOH106 4.1 17.6 1.0 CA B:CYS36 4.2 13.8 1.0 CA B:CYS39 4.3 15.5 1.0 C B:PHE16 4.6 16.3 1.0 CB B:PHE16 4.6 12.6 1.0 CA B:CYS14 4.7 13.9 1.0 C B:CYS36 4.7 14.9 1.0 O B:CYS36 4.8 14.8 1.0 C B:CYS17 4.9 17.9 1.0 CA B:PHE16 4.9 14.5 1.0 N B:GLY18 5.0 18.1 1.0 C B:ILE35 5.0 13.6 1.0

E.Y.Park, B.G.Lee, S.B.Hong, H.W.Kim, H.Jeon, H.K.Song. Structural Basis of Sspb-Tail Recognition By the Zinc Binding Domain of Clpx. J.Mol.Biol. V. 367 514 2007.
ISSN: ISSN 0022-2836
PubMed: 17258768
DOI: 10.1016/J.JMB.2007.01.003