Zinc in PDB 6g5i: Cryo-Em Structure of A Late Human Pre-40S Ribosomal Subunit - State R

All present enzymatic activity of Cryo-Em Structure of A Late Human Pre-40S Ribosomal Subunit - State R:
2.7.11.1; 4.2.99.18;

The binding sites of Zinc atom in the Cryo-Em Structure of A Late Human Pre-40S Ribosomal Subunit - State R (pdb code 6g5i). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Cryo-Em Structure of A Late Human Pre-40S Ribosomal Subunit - State R, PDB code: 6g5i:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Cryo-Em Structure of A Late Human Pre-40S Ribosomal Subunit - State R


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 A Late Human Pre-40S Ribosomal Subunit - State R within 5.0Å range: probe atom residue distance (Å) B Occ d:Zn201 b:30.0 occ:1.00 SG d:CYS21 2.2 45.4 1.0 SG d:CYS39 2.4 47.0 1.0 SG d:CYS24 2.5 48.6 1.0 SG d:CYS42 2.5 48.5 1.0 CB d:CYS42 3.2 48.5 1.0 CB d:CYS21 3.4 45.4 1.0 CB d:CYS39 3.7 47.0 1.0 CB d:VAL23 3.8 46.0 1.0 N d:CYS24 3.9 48.6 1.0 CB d:CYS24 4.0 48.6 1.0 N d:CYS39 4.1 47.0 1.0 CG2 d:VAL23 4.4 46.0 1.0 CA d:CYS42 4.4 48.5 1.0 N d:CYS42 4.4 48.5 1.0 CB d:ASN26 4.4 53.1 1.0 CA d:CYS39 4.4 47.0 1.0 CG1 d:VAL23 4.5 46.0 1.0 CA d:CYS24 4.5 48.6 1.0 CA d:VAL23 4.5 46.0 1.0 C d:VAL23 4.6 46.0 1.0 N d:VAL23 4.6 46.0 1.0 O2' 2:G1495 4.7 59.8 1.0 CA d:CYS21 4.7 45.4 1.0 O d:CYS39 5.0 47.0 1.0

Zinc binding site 2 out of 3 in the Cryo-Em Structure of A Late Human Pre-40S Ribosomal Subunit - State R


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of A Late Human Pre-40S Ribosomal Subunit - State R within 5.0Å range: probe atom residue distance (Å) B Occ f:Zn201 b:30.0 occ:1.00 SG f:CYS141 2.0 94.2 1.0 SG f:CYS121 2.0 87.7 1.0 SG f:CYS144 2.3 89.8 1.0 CB f:CYS141 2.5 94.2 1.0 CB f:CYS121 3.1 87.7 1.0 OG f:SER123 3.6 85.5 1.0 CB f:CYS144 4.0 89.8 1.0 CA f:CYS141 4.0 94.2 1.0 CB f:LEU146 4.1 86.0 1.0 N f:CYS144 4.2 89.8 1.0 CA f:CYS121 4.4 87.7 1.0 CA f:CYS144 4.5 89.8 1.0 C f:CYS144 4.5 89.8 1.0 C f:CYS141 4.6 94.2 1.0 CD2 f:LEU146 4.6 86.0 1.0 O f:CYS141 4.6 94.2 1.0 N f:LEU146 4.7 86.0 1.0 CB f:SER123 4.7 85.5 1.0 N f:CYS145 4.7 83.0 1.0 CG f:MET132 4.9 97.9 1.0 O f:CYS144 4.9 89.8 1.0 N f:CYS141 4.9 94.2 1.0

Zinc binding site 3 out of 3 in the Cryo-Em Structure of A Late Human Pre-40S Ribosomal Subunit - State R


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Cryo-Em Structure of A Late Human Pre-40S Ribosomal Subunit - State R within 5.0Å range: probe atom residue distance (Å) B Occ y:Zn500 b:81.1 occ:1.00 SG y:CYS288 2.5 49.2 1.0 SG y:CYS273 2.5 53.9 1.0 CB y:CYS270 2.6 61.4 1.0 SG y:CYS270 2.8 61.4 1.0 SG y:CYS285 2.8 53.6 1.0 CB y:CYS285 3.4 53.6 1.0 N y:CYS273 3.7 53.9 1.0 CB y:CYS273 3.8 53.9 1.0 CA y:CYS270 3.8 61.4 1.0 CB y:CYS288 4.0 49.2 1.0 CA y:CYS273 4.2 53.9 1.0 C y:CYS270 4.4 61.4 1.0 N y:GLY272 4.4 55.1 1.0 N y:CYS288 4.5 49.2 1.0 N y:HIS271 4.5 56.2 1.0 N y:PHE274 4.6 55.9 1.0 C y:GLY272 4.7 55.1 1.0 C y:CYS273 4.7 53.9 1.0 CA y:CYS285 4.8 53.6 1.0 CA y:CYS288 4.8 49.2 1.0 CA y:GLY272 4.8 55.1 1.0 CG2 y:THR292 4.8 48.9 1.0 N y:CYS270 5.0 61.4 1.0

M.Ameismeier, J.Cheng, O.Berninghausen, R.Beckmann. Visualizing Late States of Human 40S Ribosomal Subunit Maturation. Nature V. 558 249 2018.
ISSN: ISSN 0028-0836
PubMed: 29875412
DOI: 10.1038/S41586-018-0193-0