Zinc in PDB 8cgd: Clindamycin Bound to the 50S Subunit

The structure of Clindamycin Bound to the 50S Subunit also contains other interesting chemical elements:

Chlorine	(Cl)	1 atom
Potassium	(K)	85 atoms
Magnesium	(Mg)	254 atoms

The binding sites of Zinc atom in the Clindamycin Bound to the 50S Subunit (pdb code 8cgd). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Clindamycin Bound to the 50S Subunit, PDB code: 8cgd:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Clindamycin Bound to the 50S Subunit


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Clindamycin Bound to the 50S Subunit within 5.0Å range: probe atom residue distance (Å) B Occ 3:Zn101 b:39.7 occ:1.00 ND1 3:HIS33 2.1 40.3 1.0 SG 3:CYS27 2.3 42.9 1.0 SG 3:CYS14 2.3 40.5 1.0 SG 3:CYS11 2.3 47.1 1.0 CE1 3:HIS33 3.0 42.7 1.0 CG 3:HIS33 3.0 40.4 1.0 CB 3:HIS33 3.3 37.5 1.0 CB 3:CYS27 3.4 46.2 1.0 CB 3:CYS11 3.5 47.1 1.0 N 3:CYS14 3.5 46.4 1.0 CB 3:CYS14 3.6 42.6 1.0 N 3:CYS11 3.7 47.6 1.0 CA 3:CYS14 3.8 45.6 1.0 CA 3:CYS11 4.0 48.7 1.0 NE2 3:HIS33 4.1 43.0 1.0 CD2 3:HIS33 4.2 40.0 1.0 C 3:ASN13 4.2 50.5 1.0 O 3:CYS11 4.3 51.5 1.0 C 3:CYS11 4.3 52.0 1.0 C 3:LEU10 4.5 47.6 1.0 CA 3:CYS27 4.6 47.2 1.0 CB 3:GLU30 4.6 58.7 1.0 CB 3:LEU10 4.7 47.8 1.0 N 3:ASN13 4.7 50.9 1.0 CB 3:ASN13 4.7 53.9 1.0 N 3:LEU10 4.8 45.0 1.0 CA 3:ASN13 4.8 50.7 1.0 CA 3:HIS33 4.9 36.6 1.0 CA 3:LEU10 4.9 47.1 1.0 O 3:ASN13 4.9 50.2 1.0 O 3:GLU30 5.0 47.0 1.0 N 3:GLU30 5.0 53.9 1.0

Zinc binding site 2 out of 2 in the Clindamycin Bound to the 50S Subunit


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Clindamycin Bound to the 50S Subunit within 5.0Å range:

H.Paternoga, C.Crowe-Mcauliffe, L.V.Bock, T.O.Koller, M.Morici, B.Beckert, A.G.Myasnikov, H.Grubmueller, J.Novacek, D.N.Wilson. Structural Conservation of Antibiotic Interaction with Ribosomes To Be Published.