Zinc in PDB 8zdd: Cryo-Em Structure of the Human Ubiquitylated Pre-40S Ribosome with RIOK3 (Without NOB1)

All present enzymatic activity of Cryo-Em Structure of the Human Ubiquitylated Pre-40S Ribosome with RIOK3 (Without NOB1):
2.7.11.1; 4.2.99.18;

The binding sites of Zinc atom in the Cryo-Em Structure of the Human Ubiquitylated Pre-40S Ribosome with RIOK3 (Without NOB1) (pdb code 8zdd). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Cryo-Em Structure of the Human Ubiquitylated Pre-40S Ribosome with RIOK3 (Without NOB1), PDB code: 8zdd:

Zinc binding site 1 out of 1 in the Cryo-Em Structure of the Human Ubiquitylated Pre-40S Ribosome with RIOK3 (Without NOB1)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of the Human Ubiquitylated Pre-40S Ribosome with RIOK3 (Without NOB1) within 5.0Å range: probe atom residue distance (Å) B Occ d:Zn201 b:142.6 occ:1.00 O d:MET38 2.0 36.5 1.0 O d:CYS39 2.2 38.2 1.0 C d:CYS39 2.3 38.2 1.0 C d:MET38 2.5 36.5 1.0 N d:ARG40 2.9 31.4 1.0 CG1 d:ILE31 2.9 40.1 1.0 N d:CYS39 2.9 38.2 1.0 CA d:CYS39 3.0 38.2 1.0 CD1 d:ILE31 3.4 40.1 1.0 CA d:ARG40 3.4 31.4 1.0 CB d:PHE43 3.5 25.9 1.0 CA d:MET38 3.5 36.5 1.0 CB d:MET38 3.6 36.5 1.0 N d:ILE31 3.7 40.1 1.0 CG2 d:ILE31 3.7 40.1 1.0 CB d:ILE31 3.8 40.1 1.0 O d:GLY29 4.1 44.8 1.0 N d:MET38 4.1 36.5 1.0 N d:PHE43 4.2 25.9 1.0 CA d:ILE31 4.3 40.1 1.0 C d:ARG40 4.4 31.4 1.0 CB d:CYS39 4.4 38.2 1.0 CA d:PHE43 4.4 25.9 1.0 CG d:PHE43 4.4 25.9 1.0 CB d:ARG40 4.5 31.4 1.0 C d:LEU30 4.5 41.7 1.0 CA d:LEU30 4.6 41.7 1.0 O d:ILE31 4.8 40.1 1.0 N d:GLN41 5.0 32.6 1.0

J.Cheng, Z.Huang, M.Wang, Y.Li, R.Beckmann, J.Cheng. N/A N/A.
ISSN: ISSN 1097-2765
DOI: 10.1016/J.MOLCEL.2025.01.013