Zinc in PDB 8a63: Cryo-Em Structure of Listeria Monocytogenes 50S Ribosomal Subunit.

The structure of Cryo-Em Structure of Listeria Monocytogenes 50S Ribosomal Subunit. also contains other interesting chemical elements:

Magnesium	(Mg)	164 atoms
Potassium	(K)	1 atom

The binding sites of Zinc atom in the Cryo-Em Structure of Listeria Monocytogenes 50S Ribosomal Subunit. (pdb code 8a63). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryo-Em Structure of Listeria Monocytogenes 50S Ribosomal Subunit., PDB code: 8a63:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of Listeria Monocytogenes 50S Ribosomal Subunit.


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 Listeria Monocytogenes 50S Ribosomal Subunit. within 5.0Å range: probe atom residue distance (Å) B Occ 5:Zn101 b:159.7 occ:1.00 OD1 5:ASN32 2.0 172.4 1.0 SG 5:CYS33 2.3 161.4 1.0 SG 5:CYS30 2.3 144.2 1.0 SG 5:CYS43 2.3 152.8 1.0 SG 5:CYS46 2.3 168.2 1.0 CG 5:ASN32 2.8 179.3 1.0 ND2 5:ASN32 3.1 179.3 1.0 CB 5:CYS46 3.4 181.2 1.0 CB 5:CYS30 3.4 146.0 1.0 CB 5:CYS33 3.4 159.0 1.0 CB 5:CYS43 3.4 151.3 1.0 N 5:CYS33 3.5 166.8 1.0 CA 5:CYS33 4.0 158.8 1.0 NE2 5:GLN48 4.1 228.4 1.0 CA 5:ASP50 4.2 294.9 1.0 CB 5:ASN32 4.2 178.9 1.0 CB 5:ASP50 4.2 288.3 1.0 C 5:ASN32 4.4 175.3 1.0 N 5:CYS46 4.5 199.8 1.0 CA 5:CYS46 4.6 195.1 1.0 N 5:ASN32 4.6 176.5 1.0 CA 5:ASN32 4.6 177.2 1.0 CA 5:CYS30 4.8 147.7 1.0 CA 5:CYS43 4.8 148.3 1.0 N 5:ASP50 4.9 284.3 1.0 CD 5:ARG37 4.9 72.2 1.0 O 5:CYS43 5.0 167.3 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of Listeria Monocytogenes 50S Ribosomal Subunit.


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 Listeria Monocytogenes 50S Ribosomal Subunit. within 5.0Å range: probe atom residue distance (Å) B Occ 9:Zn101 b:52.9 occ:1.00 ND1 9:HIS32 2.1 50.3 1.0 SG 9:CYS14 2.3 59.7 1.0 SG 9:CYS11 2.3 62.8 1.0 SG 9:CYS27 2.3 53.3 1.0 CE1 9:HIS32 3.0 51.8 1.0 CG 9:HIS32 3.1 49.3 1.0 CB 9:CYS27 3.4 57.2 1.0 CB 9:HIS32 3.4 46.3 1.0 CB 9:CYS11 3.5 64.6 1.0 N 9:CYS14 3.5 68.0 1.0 CB 9:CYS14 3.6 61.1 1.0 N 9:CYS11 3.6 64.4 1.0 CA 9:CYS14 3.8 63.8 1.0 CA 9:CYS11 4.0 66.2 1.0 NE2 9:HIS32 4.2 52.5 1.0 CD2 9:HIS32 4.2 49.7 1.0 C 9:CYS11 4.3 70.6 1.0 O 9:CYS11 4.4 73.9 1.0 C 9:LYS13 4.4 77.1 1.0 C 9:MET10 4.4 62.3 1.0 CB 9:ASN29 4.6 60.1 1.0 CB 9:LYS13 4.6 93.0 1.0 CB 9:MET10 4.6 61.3 1.0 N 9:MET10 4.7 56.3 1.0 N 9:LYS13 4.7 80.2 1.0 CA 9:CYS27 4.8 57.4 1.0 CA 9:LYS13 4.8 84.0 1.0 CA 9:MET10 4.8 59.9 1.0 CA 9:HIS32 5.0 45.3 1.0

T.O.Koller, K.J.Turnbull, K.Vaitkevicius, C.Crowe-Mcauliffe, M.Roghanian, O.Bulvas, J.A.Nakamoto, T.Kurata, C.Julius, G.C.Atkinson, J.Johansson, V.Hauryliuk, D.N.Wilson. Structural Basis For Hflxr-Mediated Antibiotic Resistance in Listeria Monocytogenes. Nucleic Acids Res. V. 50 11285 2022.
ISSN: ESSN 1362-4962
PubMed: 36300626
DOI: 10.1093/NAR/GKAC934