Zinc in PDB 7qq3: Cryo-Em Structure of the E.Coli 50S Ribosomal Subunit in Complex with the Antibiotic Myxovalargin A.

The structure of Cryo-Em Structure of the E.Coli 50S Ribosomal Subunit in Complex with the Antibiotic Myxovalargin A. also contains other interesting chemical elements:

Magnesium

(Mg)

145 atoms

The binding sites of Zinc atom in the Cryo-Em Structure of the E.Coli 50S Ribosomal Subunit in Complex with the Antibiotic Myxovalargin A. (pdb code 7qq3). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Cryo-Em Structure of the E.Coli 50S Ribosomal Subunit in Complex with the Antibiotic Myxovalargin A., PDB code: 7qq3:

Zinc binding site 1 out of 1 in the Cryo-Em Structure of the E.Coli 50S Ribosomal Subunit in Complex with the Antibiotic Myxovalargin A.


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 E.Coli 50S Ribosomal Subunit in Complex with the Antibiotic Myxovalargin A. within 5.0Å range: probe atom residue distance (Å) B Occ m:Zn101 b:77.1 occ:1.00 ND1 m:HIS33 2.1 62.5 1.0 SG m:CYS27 2.3 64.9 1.0 SG m:CYS11 2.3 70.2 1.0 SG m:CYS14 2.4 66.2 1.0 CE1 m:HIS33 3.1 62.5 1.0 CG m:HIS33 3.1 62.5 1.0 CB m:CYS27 3.4 64.9 1.0 CB m:HIS33 3.4 62.5 1.0 CB m:CYS11 3.4 70.2 1.0 CB m:CYS14 3.5 66.2 1.0 N m:CYS14 3.7 66.2 1.0 N m:CYS11 3.8 70.2 1.0 CA m:CYS14 3.9 66.2 1.0 CA m:CYS11 4.1 70.2 1.0 NE2 m:HIS33 4.2 62.5 1.0 CD2 m:HIS33 4.2 62.5 1.0 C m:ASN13 4.4 71.9 1.0 C m:CYS11 4.4 70.2 1.0 C m:LEU10 4.5 63.2 1.0 O m:CYS11 4.5 70.2 1.0 CA m:CYS27 4.6 64.9 1.0 CB m:GLU30 4.6 64.9 1.0 CB m:LEU10 4.7 63.2 1.0 N m:ASN13 4.8 71.9 1.0 CB m:ASN13 4.8 71.9 1.0 N m:LEU10 4.9 63.2 1.0 CA m:ASN13 4.9 71.9 1.0 CA m:LEU10 4.9 63.2 1.0 CA m:HIS33 4.9 62.5 1.0

T.O.Koller, U.Scheid, T.Kosel, J.Herrmann, D.Krug, H.I.M.Boshoff, B.Beckert, J.C.Evans, J.Schlemmer, B.Sloan, D.M.Weiner, L.E.Via, A.Moosa, T.R.Ioerger, M.Graf, B.Zinshteyn, M.Abdelshahid, F.Nguyen, S.Arenz, F.Gille, M.Siebke, T.Seedorf, O.Plettenburg, R.Green, A.L.Warnke, J.Ullrich, R.Warrass, C.E.Barry 3Rd, D.F.Warner, V.Mizrahi, A.Kirschning, D.N.Wilson, R.Muller. The Myxobacterial Antibiotic Myxovalargin: Biosynthesis, Structural Revision, Total Synthesis, and Molecular Characterization of Ribosomal Inhibition. J.Am.Chem.Soc. 2023.
ISSN: ESSN 1520-5126
PubMed: 36603206
DOI: 10.1021/JACS.2C08816