Zinc in PDB 4yy3: 30S Ribosomal Subunit- Higb Complex

The structure of 30S Ribosomal Subunit- Higb Complex, PDB code: 4yy3 was solved by M.A.Schureck, T.Maehigashi, C.M.Dunham, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.16 / 3.60
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	402.594, 402.594, 176.035, 90.00, 90.00, 90.00
R / Rfree (%)	21.4 / 23.9

The structure of 30S Ribosomal Subunit- Higb Complex also contains other interesting chemical elements:

Magnesium

(Mg)

194 atoms

The binding sites of Zinc atom in the 30S Ribosomal Subunit- Higb Complex (pdb code 4yy3). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the 30S Ribosomal Subunit- Higb Complex, PDB code: 4yy3:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the 30S Ribosomal Subunit- Higb Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of 30S Ribosomal Subunit- Higb Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn301 b:72.6 occ:1.00 SG D:CYS31 2.3 87.7 1.0 SG D:CYS9 2.4 0.1 1.0 SG D:CYS26 2.8 88.3 1.0 SG D:CYS12 2.9 72.3 1.0 O D:CYS31 3.1 90.1 1.0 CB D:CYS31 3.5 87.8 1.0 CA D:CYS31 3.5 89.3 1.0 C D:CYS31 3.7 90.0 1.0 CB D:CYS9 3.8 0.4 1.0 O D:LEU19 3.8 0.1 1.0 CA D:CYS9 4.1 0.1 1.0 CB D:CYS12 4.2 73.0 1.0 CB D:CYS26 4.3 87.0 1.0 CA D:CYS26 4.7 87.3 1.0 N D:CYS31 4.9 89.3 1.0

Zinc binding site 2 out of 2 in the 30S Ribosomal Subunit- Higb Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of 30S Ribosomal Subunit- Higb Complex within 5.0Å range: probe atom residue distance (Å) B Occ N:Zn101 b:0.3 occ:1.00 SG N:CYS27 2.0 81.2 1.0 SG N:CYS43 2.2 0.3 1.0 SG N:CYS24 2.4 85.8 1.0 SG N:CYS40 2.5 79.9 1.0 CB N:CYS27 3.1 81.7 1.0 CB N:CYS43 3.3 99.6 1.0 CB N:CYS24 3.5 87.2 1.0 CB N:CYS40 3.6 80.6 1.0 N N:CYS27 3.7 83.9 1.0 N N:CYS40 4.0 82.2 1.0 CA N:CYS27 4.0 83.0 1.0 CB N:ARG29 4.0 0.9 1.0 N N:CYS43 4.2 98.8 1.0 CA N:CYS40 4.4 81.1 1.0 CA N:CYS43 4.4 98.6 1.0 CB N:ARG26 4.5 92.9 1.0 C N:ARG26 4.6 94.4 1.0 N N:ARG29 4.7 0.4 1.0 C N:CYS27 4.7 83.2 1.0 N2 A:G1202 4.7 86.0 1.0 N N:GLY28 4.8 0.6 1.0 O N:CYS40 4.8 80.2 1.0 CG N:ARG26 4.8 92.2 1.0 CD2 N:LEU39 4.8 90.9 1.0 CA N:CYS24 4.9 87.9 1.0 C N:CYS40 4.9 80.2 1.0 CA N:ARG26 5.0 94.1 1.0

M.A.Schureck, T.Maehigashi, S.J.Miles, J.Marquez, C.M.Dunham. Mrna Bound to the 30S Subunit Is A Higb Toxin Substrate. Rna V. 22 1261 2016.
ISSN: ESSN 1469-9001
PubMed: 27307497
DOI: 10.1261/RNA.056218.116