Zinc in PDB 6g5h: Cryo-Em Structure of A Late Human Pre-40S Ribosomal Subunit - Mature

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

The binding sites of Zinc atom in the Cryo-Em Structure of A Late Human Pre-40S Ribosomal Subunit - Mature (pdb code 6g5h). 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 - Mature, PDB code: 6g5h:
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 - Mature


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 - Mature within 5.0Å range: probe atom residue distance (Å) B Occ a:Zn201 b:65.8 occ:1.00 SG a:CYS74 2.4 48.2 1.0 SG a:CYS26 2.5 53.5 1.0 CB a:CYS26 2.5 53.5 1.0 SG a:CYS77 2.5 50.7 1.0 N a:CYS26 2.6 53.5 1.0 CB a:CYS77 2.7 50.7 1.0 CA a:CYS26 3.0 53.5 1.0 SG a:CYS23 3.3 52.8 1.0 C a:ASN25 3.7 56.1 1.0 CB a:ASN25 3.8 56.1 1.0 CA a:CYS77 3.9 50.7 1.0 N a:CYS77 3.9 50.7 1.0 CB a:CYS74 3.9 48.2 1.0 CA a:ASN25 4.2 56.1 1.0 C a:CYS26 4.4 53.5 1.0 CB a:CYS23 4.4 52.8 1.0 N a:ASN25 4.5 56.1 1.0 N a:CYS74 4.5 48.2 1.0 CG a:ASN25 4.6 56.1 1.0 O a:ASN25 4.7 56.1 1.0 N a:ALA27 4.7 49.3 1.0 CA a:CYS74 4.7 48.2 1.0 O a:CYS74 4.8 48.2 1.0 C a:CYS77 4.9 50.7 1.0 ND2 a:ASN25 5.0 56.1 1.0

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


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 - Mature within 5.0Å range: probe atom residue distance (Å) B Occ d:Zn201 b:30.0 occ:1.00 SG d:CYS21 2.2 65.9 1.0 SG d:CYS24 2.4 64.2 1.0 CB d:CYS39 2.6 65.6 1.0 SG d:CYS42 2.7 66.0 1.0 CG1 d:VAL23 2.9 63.6 1.0 CB d:CYS42 3.0 66.0 1.0 CB d:CYS21 3.1 65.9 1.0 N d:CYS39 3.4 65.6 1.0 CA d:CYS39 3.6 65.6 1.0 CB d:CYS24 3.6 64.2 1.0 SG d:CYS39 3.9 65.6 1.0 N d:CYS24 4.0 64.2 1.0 CA d:CYS42 4.2 66.0 1.0 N d:CYS42 4.3 66.0 1.0 CA d:CYS24 4.4 64.2 1.0 CB d:VAL23 4.4 63.6 1.0 C d:CYS39 4.5 65.6 1.0 CA d:CYS21 4.6 65.9 1.0 C d:MET38 4.7 65.6 1.0 O2' 2:G1495 4.7 85.4 1.0 C d:VAL23 4.8 63.6 1.0 O d:CYS39 4.9 65.6 1.0 C d:CYS24 5.0 64.2 1.0 CA d:VAL23 5.0 63.6 1.0

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


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 - Mature within 5.0Å range: probe atom residue distance (Å) B Occ f:Zn500 b:0.9 occ:1.00 N f:CYS144 2.2 0.7 1.0 SG f:CYS141 2.5 0.5 1.0 CB f:LYS143 2.5 0.7 1.0 SG f:CYS126 2.7 0.5 1.0 CA f:LYS143 3.0 0.7 1.0 C f:LYS143 3.0 0.7 1.0 N f:LYS143 3.1 0.7 1.0 CB f:CYS126 3.2 0.5 1.0 CB f:CYS144 3.3 0.7 1.0 CA f:CYS144 3.3 0.7 1.0 SG f:CYS144 3.3 0.7 1.0 CG f:LYS143 3.5 0.7 1.0 CD f:LYS143 3.9 0.7 1.0 CB f:CYS141 4.0 0.5 1.0 O f:LYS143 4.2 0.7 1.0 C f:CYS144 4.3 0.7 1.0 C f:GLY142 4.4 0.6 1.0 N f:CYS145 4.4 1.0 1.0 CA f:CYS126 4.7 0.5 1.0 N f:GLY142 4.7 0.6 1.0 CE f:LYS143 4.8 0.7 1.0 CG1 f:VAL130 4.8 0.9 1.0 SG f:CYS121 4.9 0.9 1.0 C f:CYS141 4.9 0.5 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