Zinc in PDB 6cap: Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus in Complex with Sisomicin

The structure of Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus in Complex with Sisomicin, PDB code: 6cap was solved by H.Demirci, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.91 / 3.40
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	400.970, 400.970, 175.050, 90.00, 90.00, 90.00
R / Rfree (%)	18.3 / 23

The structure of Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus in Complex with Sisomicin also contains other interesting chemical elements:

Magnesium

(Mg)

252 atoms

The binding sites of Zinc atom in the Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus in Complex with Sisomicin (pdb code 6cap). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus in Complex with Sisomicin, PDB code: 6cap:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus in Complex with Sisomicin


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 30S Ribosomal Subunit From Thermus Thermophilus in Complex with Sisomicin within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn301 b:0.2 occ:1.00 SG D:CYS26 2.3 99.4 1.0 SG D:CYS9 2.3 97.5 1.0 SG D:CYS31 2.3 0.5 1.0 SG D:CYS12 2.3 0.9 1.0 O D:LEU19 3.2 0.7 1.0 O D:CYS31 3.3 0.5 1.0 CB D:CYS26 3.6 0.3 1.0 CB D:CYS31 3.6 0.5 1.0 CB D:CYS9 3.7 0.2 1.0 CB D:CYS12 3.7 0.3 1.0 CA D:CYS9 3.9 0.1 1.0 CA D:CYS31 3.9 0.8 1.0 C D:CYS31 4.0 0.2 1.0 CA D:CYS26 4.1 0.5 1.0 C D:LEU19 4.3 0.2 1.0 CB D:LYS22 4.4 0.7 1.0 N D:CYS9 4.8 0.7 1.0 N D:CYS26 4.8 0.1 1.0 CG D:LYS22 4.8 0.3 1.0 O D:CYS9 4.9 0.8 1.0 C D:CYS9 4.9 0.0 1.0 O D:ARG25 5.0 0.0 1.0 N D:LEU19 5.0 0.6 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus in Complex with Sisomicin


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus in Complex with Sisomicin within 5.0Å range: probe atom residue distance (Å) B Occ N:Zn101 b:0.3 occ:1.00 SG N:CYS43 2.3 0.5 1.0 SG N:CYS27 2.3 0.4 1.0 SG N:CYS40 2.3 0.7 1.0 SG N:CYS24 2.3 0.4 1.0 CB N:CYS27 3.1 0.0 1.0 CB N:CYS43 3.1 0.8 1.0 CB N:CYS40 3.2 0.4 1.0 CB N:CYS24 3.6 1.0 1.0 N N:CYS40 3.7 0.7 1.0 N N:CYS27 3.7 0.8 1.0 CB N:ARG29 3.9 0.1 1.0 CA N:CYS27 3.9 0.1 1.0 N N:CYS43 4.0 0.4 1.0 CA N:CYS40 4.0 0.2 1.0 CA N:CYS43 4.1 0.7 1.0 N N:ARG29 4.5 0.2 1.0 C N:CYS27 4.5 0.2 1.0 N2 A:G1202 4.6 0.8 1.0 C N:CYS40 4.7 0.7 1.0 N N:GLY28 4.7 0.1 1.0 O N:CYS40 4.8 0.5 1.0 CA N:ARG29 4.8 0.5 1.0 CB N:ARG26 4.8 0.2 1.0 C N:LEU39 4.9 0.4 1.0 C N:ARG26 4.9 0.0 1.0 CG N:ARG29 4.9 0.6 1.0 N3 A:G1202 5.0 0.1 1.0 CA N:CYS24 5.0 0.9 1.0

H.Demirci, H.Demirci. N/A N/A.