Zinc in PDB 5mmi: Structure of the Large Subunit of the Chloroplast Ribosome

The structure of Structure of the Large Subunit of the Chloroplast Ribosome also contains other interesting chemical elements:

Magnesium

(Mg)

501 atoms

The binding sites of Zinc atom in the Structure of the Large Subunit of the Chloroplast Ribosome (pdb code 5mmi). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of the Large Subunit of the Chloroplast Ribosome, PDB code: 5mmi:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of the Large Subunit of the Chloroplast Ribosome


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of the Large Subunit of the Chloroplast Ribosome within 5.0Å range: probe atom residue distance (Å) B Occ 2:Zn100 b:51.3 occ:1.00 SG 2:CYS18 2.3 63.5 1.0 SG 2:CYS52 2.4 52.2 1.0 SG 2:CYS55 2.4 66.2 1.0 SG 2:CYS15 2.5 65.5 1.0 CB 2:CYS15 3.3 50.7 1.0 CB 2:CYS52 3.5 39.2 1.0 CB 2:CYS18 3.7 72.1 1.0 CB 2:CYS55 3.8 53.2 1.0 N 2:CYS55 4.2 48.5 1.0 CA 2:CYS18 4.3 71.8 1.0 N 2:CYS18 4.4 67.2 1.0 OG1 2:THR59 4.5 51.3 1.0 C 2:GLY17 4.6 70.7 1.0 CB 2:SER31 4.6 40.9 1.0 O 2:GLY17 4.6 67.8 1.0 CA 2:CYS55 4.7 51.2 1.0 CB 2:TYR54 4.7 45.4 1.0 CA 2:CYS15 4.8 46.2 1.0 N 2:SER31 4.9 35.8 1.0 CA 2:CYS52 4.9 34.5 1.0

Zinc binding site 2 out of 2 in the Structure of the Large Subunit of the Chloroplast Ribosome


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of the Large Subunit of the Chloroplast Ribosome within 5.0Å range: probe atom residue distance (Å) B Occ 5:Zn100 b:73.1 occ:1.00 SG 5:CYS11 2.2 95.0 1.0 ND1 5:HIS32 2.2 67.2 1.0 SG 5:CYS14 2.3 69.1 1.0 SG 5:CYS27 2.4 83.4 1.0 CG 5:HIS32 3.2 64.0 1.0 CE1 5:HIS32 3.2 67.0 1.0 CB 5:HIS32 3.4 59.7 1.0 CB 5:CYS11 3.5 77.1 1.0 CB 5:CYS27 3.6 73.4 1.0 CB 5:CYS14 3.7 76.1 1.0 CG2 5:ILE10 3.9 66.6 1.0 N 5:CYS14 3.9 86.4 1.0 N 5:CYS11 4.0 77.8 1.0 CA 5:CYS14 4.1 78.9 1.0 CA 5:CYS11 4.3 78.4 1.0 OD1 5:ASN29 4.3 67.3 1.0 NE2 5:HIS32 4.3 67.1 1.0 CD2 5:HIS32 4.3 63.6 1.0 C 5:LYS13 4.5 85.0 1.0 C 5:ILE10 4.6 71.7 1.0 C 5:CYS11 4.7 77.0 1.0 N 5:LYS13 4.7 83.3 1.0 CB 5:LYS13 4.8 94.1 1.0 CA 5:LYS13 4.9 87.0 1.0 CA 5:CYS27 4.9 74.0 1.0 CA 5:HIS32 5.0 55.9 1.0 N 5:ILE10 5.0 61.0 1.0

P.Bieri, M.Leibundgut, M.Saurer, D.Boehringer, N.Ban. The Complete Structure of the Chloroplast 70S Ribosome in Complex with Translation Factor Py. Embo J. V. 36 475 2017.
ISSN: ESSN 1460-2075
PubMed: 28007896
DOI: 10.15252/EMBJ.201695959