Zinc in PDB 8uua: Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III)

The structure of Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III) also contains other interesting chemical elements:

Magnesium	(Mg)	200 atoms
Potassium	(K)	1 atom

The binding sites of Zinc atom in the Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III) (pdb code 8uua). 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 the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III), PDB code: 8uua:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III)


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 Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III) within 5.0Å range: probe atom residue distance (Å) B Occ 4:Zn101 b:77.3 occ:1.00 SG 4:CYS46 2.3 60.4 1.0 SG 4:CYS33 2.3 65.6 1.0 SG 4:CYS43 2.3 57.0 1.0 SG 4:CYS30 2.3 63.5 1.0 CB 4:CYS30 3.1 63.5 1.0 CB 4:CYS43 3.3 57.0 1.0 CB 4:CYS33 3.6 65.6 1.0 CB 4:CYS46 3.9 60.4 1.0 N 4:CYS33 3.9 65.6 1.0 N 4:CYS46 4.3 60.4 1.0 CA 4:CYS33 4.3 65.6 1.0 CA 4:CYS30 4.6 63.5 1.0 CB 4:ASN32 4.6 65.4 1.0 CA 4:CYS46 4.7 60.4 1.0 CA 4:CYS43 4.7 57.0 1.0 CB 4:GLU45 4.8 60.2 1.0 OD1 4:ASN32 4.9 65.4 1.0 CB 4:GLU35 4.9 62.1 1.0 C 4:CYS33 5.0 65.6 1.0

Zinc binding site 2 out of 3 in the Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III)


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 the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III) within 5.0Å range: probe atom residue distance (Å) B Occ 5:Zn101 b:78.4 occ:1.00 SG 5:CYS9 2.3 58.5 1.0 SG 5:CYS36 2.3 54.8 1.0 SG 5:CYS12 2.3 62.0 1.0 CB 5:CYS12 2.9 62.0 1.0 CB 5:CYS9 3.2 58.5 1.0 CD1 5:LEU39 3.4 56.1 1.0 N 5:CYS12 3.7 62.0 1.0 CB 5:CYS36 3.7 54.8 1.0 CG 5:LEU39 3.8 56.1 1.0 CA 5:CYS12 3.9 62.0 1.0 C 5:GLU11 4.4 61.0 1.0 CD2 5:LEU39 4.6 56.1 1.0 CA 5:CYS9 4.6 58.5 1.0 CB 5:ASP14 4.8 57.0 1.0 CB 5:GLU11 4.8 61.0 1.0 OD1 5:ASN16 4.8 53.4 1.0 C 5:CYS12 4.9 62.0 1.0 N 5:GLU11 4.9 61.0 1.0 CA 5:GLU11 4.9 61.0 1.0 CB 5:ARG38 4.9 55.8 1.0

Zinc binding site 3 out of 3 in the Cryo-Em Structure of the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III)


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 the Listeria Innocua 50S Ribosomal Subunit in Complex with Hflxr (Structure III) within 5.0Å range: probe atom residue distance (Å) B Occ 8:Zn101 b:71.5 occ:1.00 ND1 8:HIS32 2.1 57.6 1.0 SG 8:CYS14 2.3 60.8 1.0 SG 8:CYS11 2.3 62.4 1.0 SG 8:CYS27 2.3 60.9 1.0 CE1 8:HIS32 3.0 57.6 1.0 CG 8:HIS32 3.2 57.6 1.0 CB 8:CYS27 3.3 60.9 1.0 CB 8:HIS32 3.6 57.6 1.0 CB 8:CYS11 3.6 62.4 1.0 CB 8:CYS14 3.7 60.8 1.0 N 8:CYS14 3.7 60.8 1.0 CA 8:CYS14 3.9 60.8 1.0 N 8:CYS11 4.1 62.4 1.0 NE2 8:HIS32 4.1 57.6 1.0 CD2 8:HIS32 4.2 57.6 1.0 CA 8:CYS11 4.3 62.4 1.0 C 8:LYS13 4.4 62.9 1.0 C 8:CYS11 4.7 62.4 1.0 CB 8:ASN29 4.7 60.3 1.0 N 8:LYS13 4.7 62.9 1.0 CA 8:CYS27 4.7 60.9 1.0 C 8:MET10 4.8 59.1 1.0 CB 8:LYS13 4.9 62.9 1.0 O 8:CYS11 4.9 62.4 1.0 CA 8:LYS13 4.9 62.9 1.0

S.M.Seely, R.S.Basu, M.G.Gagnon. Mechanistic Insights Into the Alternative Ribosome Recycling By Hflxr To Be Published.