Zinc in PDB 2ds5: Structure of the Zbd in the Orthorhomibic Crystal From

The structure of Structure of the Zbd in the Orthorhomibic Crystal From, PDB code: 2ds5 was solved by H.K.Song, E.Y.Park, B.G.Lee, S.B.Hong, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 1.50
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	32.523, 43.399, 67.719, 90.00, 90.00, 90.00
R / Rfree (%)	18.5 / 22.1

The structure of Structure of the Zbd in the Orthorhomibic Crystal From also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Zinc atom in the Structure of the Zbd in the Orthorhomibic Crystal From (pdb code 2ds5). 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 in the Orthorhomibic Crystal From, PDB code: 2ds5:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of the Zbd in the Orthorhomibic Crystal From


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 in the Orthorhomibic Crystal From within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn100 b:9.9 occ:1.00 SG A:CYS39 2.3 9.7 1.0 SG A:CYS17 2.4 10.1 1.0 SG A:CYS36 2.4 10.2 1.0 SG A:CYS14 2.4 8.7 1.0 CB A:CYS14 3.2 8.4 1.0 CB A:CYS39 3.3 8.8 1.0 CB A:CYS17 3.3 9.2 1.0 CB A:CYS36 3.5 9.0 1.0 N A:CYS17 3.7 8.8 1.0 N A:CYS36 3.9 8.5 1.0 N A:CYS39 4.0 9.2 1.0 CA A:CYS17 4.1 10.2 1.0 O A:HOH108 4.2 17.9 1.0 CA A:CYS39 4.2 9.4 1.0 CA A:CYS36 4.2 8.1 1.0 O A:HOH146 4.4 19.4 1.0 CB A:PHE16 4.6 9.6 1.0 CA A:CYS14 4.7 9.0 1.0 O A:CYS36 4.7 9.5 1.0 C A:PHE16 4.7 10.2 1.0 C A:CYS36 4.7 9.3 1.0 C A:CYS17 4.8 10.9 1.0 N A:GLY18 4.9 11.2 1.0

Zinc binding site 2 out of 2 in the Structure of the Zbd in the Orthorhomibic Crystal From


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 in the Orthorhomibic Crystal From within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn100 b:10.8 occ:1.00 SG B:CYS39 2.4 10.1 1.0 SG B:CYS36 2.4 9.7 1.0 SG B:CYS14 2.4 9.2 1.0 SG B:CYS17 2.4 11.8 1.0 CB B:CYS14 3.2 10.1 1.0 CB B:CYS17 3.3 10.9 1.0 CB B:CYS39 3.3 8.9 1.0 CB B:CYS36 3.5 9.7 1.0 N B:CYS17 3.7 11.2 1.0 N B:CYS36 3.9 9.4 1.0 CA B:CYS17 4.1 11.1 1.0 N B:CYS39 4.1 10.5 1.0 CA B:CYS36 4.2 9.0 1.0 CA B:CYS39 4.3 9.7 1.0 O B:HOH507 4.3 22.9 1.0 CB B:PHE16 4.6 9.8 1.0 C B:PHE16 4.7 11.2 1.0 CA B:CYS14 4.7 10.0 1.0 O B:CYS36 4.7 9.8 1.0 C B:CYS36 4.7 9.8 1.0 C B:CYS17 4.8 12.1 1.0 N B:GLY18 4.9 10.7 1.0 CA B:PHE16 5.0 10.6 1.0 N B:PHE16 5.0 9.6 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