Zinc in PDB 7duh: Crystal Structure of the Thermus Thermophilus (HB8) 30S Ribosomal Subunit with Mrna and Cognate Transfer Rna Anticodon Stem-Loop and Sisomicin Derivative N1''Ac Bound

The structure of Crystal Structure of the Thermus Thermophilus (HB8) 30S Ribosomal Subunit with Mrna and Cognate Transfer Rna Anticodon Stem-Loop and Sisomicin Derivative N1''Ac Bound, PDB code: 7duh was solved by H.Demirci, E.Destan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.83 / 3.75
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	400.83, 400.83, 174.67, 90, 90, 90
R / Rfree (%)	18.8 / 23

The structure of Crystal Structure of the Thermus Thermophilus (HB8) 30S Ribosomal Subunit with Mrna and Cognate Transfer Rna Anticodon Stem-Loop and Sisomicin Derivative N1''Ac Bound also contains other interesting chemical elements:

Magnesium

(Mg)

249 atoms

The binding sites of Zinc atom in the Crystal Structure of the Thermus Thermophilus (HB8) 30S Ribosomal Subunit with Mrna and Cognate Transfer Rna Anticodon Stem-Loop and Sisomicin Derivative N1''Ac Bound (pdb code 7duh). 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 the Thermus Thermophilus (HB8) 30S Ribosomal Subunit with Mrna and Cognate Transfer Rna Anticodon Stem-Loop and Sisomicin Derivative N1''Ac Bound, PDB code: 7duh:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of the Thermus Thermophilus (HB8) 30S Ribosomal Subunit with Mrna and Cognate Transfer Rna Anticodon Stem-Loop and Sisomicin Derivative N1''Ac Bound


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 the Thermus Thermophilus (HB8) 30S Ribosomal Subunit with Mrna and Cognate Transfer Rna Anticodon Stem-Loop and Sisomicin Derivative N1''Ac Bound within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn301 b:96.7 occ:1.00 SG D:CYS31 2.3 108.4 1.0 SG D:CYS26 2.3 104.7 1.0 SG D:CYS9 2.3 98.9 1.0 SG D:CYS12 2.3 143.1 1.0 O D:LEU19 3.1 169.4 1.0 O D:CYS31 3.2 142.7 1.0 CB D:CYS26 3.6 130.2 1.0 CB D:CYS9 3.6 128.0 1.0 CB D:CYS31 3.6 131.9 1.0 CB D:CYS12 3.7 142.5 1.0 CA D:CYS31 3.8 163.7 1.0 CA D:CYS9 3.9 156.6 1.0 C D:CYS31 4.0 177.5 1.0 CA D:CYS26 4.0 170.8 1.0 CB D:LYS22 4.3 163.4 1.0 C D:LEU19 4.4 175.2 1.0 N D:CYS26 4.7 183.8 1.0 N D:CYS9 4.7 169.5 1.0 CG D:LYS22 4.8 154.8 1.0 O D:ARG25 4.9 175.9 1.0 O D:CYS9 4.9 168.5 1.0 C D:CYS9 5.0 161.7 1.0 N D:LEU19 5.0 176.1 1.0 CG D:MET33 5.0 199.4 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of the Thermus Thermophilus (HB8) 30S Ribosomal Subunit with Mrna and Cognate Transfer Rna Anticodon Stem-Loop and Sisomicin Derivative N1''Ac Bound


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 the Thermus Thermophilus (HB8) 30S Ribosomal Subunit with Mrna and Cognate Transfer Rna Anticodon Stem-Loop and Sisomicin Derivative N1''Ac Bound within 5.0Å range: probe atom residue distance (Å) B Occ N:Zn101 b:165.1 occ:1.00 SG N:CYS43 2.3 149.4 1.0 SG N:CYS27 2.3 140.3 1.0 SG N:CYS40 2.3 183.4 1.0 SG N:CYS24 2.3 179.0 1.0 CB N:CYS27 3.1 150.7 1.0 CB N:CYS43 3.1 143.4 1.0 CB N:CYS40 3.1 174.3 1.0 N N:CYS40 3.7 151.5 1.0 N N:CYS27 3.7 161.4 1.0 CB N:CYS24 3.7 182.7 1.0 N N:CYS43 3.9 130.4 1.0 CA N:CYS27 3.9 163.2 1.0 CA N:CYS40 4.0 159.6 1.0 CB N:ARG29 4.1 165.5 1.0 CA N:CYS43 4.1 133.5 1.0 N2 A:G1202 4.5 184.2 1.0 C N:CYS27 4.6 173.7 1.0 N N:ARG29 4.6 178.3 1.0 C N:CYS40 4.7 152.6 1.0 N N:GLY28 4.7 176.3 1.0 C N:LEU39 4.8 153.8 1.0 C N:ARG26 4.9 156.0 1.0 O N:CYS40 4.9 148.2 1.0 N3 A:G1202 4.9 170.0 1.0 CB N:ARG26 4.9 147.2 1.0

H.Demirci, H.Demirci, E.Destan. N/A N/A.