Zinc in PDB 4v19: Structure of the Large Subunit of the Mammalian Mitochondrial Ribosome, Part 1 of 2

The structure of Structure of the Large Subunit of the Mammalian Mitochondrial Ribosome, Part 1 of 2 also contains other interesting chemical elements:

Magnesium

(Mg)

169 atoms

The binding sites of Zinc atom in the Structure of the Large Subunit of the Mammalian Mitochondrial Ribosome, Part 1 of 2 (pdb code 4v19). 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 Mammalian Mitochondrial Ribosome, Part 1 of 2, PDB code: 4v19:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of the Large Subunit of the Mammalian Mitochondrial Ribosome, Part 1 of 2


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 Mammalian Mitochondrial Ribosome, Part 1 of 2 within 5.0Å range: probe atom residue distance (Å) B Occ 5:Zn500 b:1.0 occ:1.00 SG 5:CYS110 2.3 86.5 1.0 SG 5:CYS113 2.3 71.5 1.0 SG 5:CYS126 2.3 72.9 1.0 SG 5:CYS123 2.3 49.1 1.0 CB 5:CYS110 3.3 55.6 1.0 CB 5:CYS123 3.3 44.4 1.0 CB 5:CYS126 3.4 35.8 1.0 N 5:CYS126 3.8 36.0 1.0 CB 5:CYS113 4.0 63.2 1.0 CA 5:CYS126 4.1 35.7 1.0 N 5:CYS113 4.1 69.7 1.0 CB 5:GLU112 4.5 79.4 1.0 CA 5:CYS113 4.6 68.6 1.0 CA 5:CYS110 4.7 51.0 1.0 C 5:TYR125 4.7 40.9 1.0 CA 5:CYS123 4.7 38.4 1.0 CB 5:TYR125 4.8 47.5 1.0 O 5:CYS110 4.9 66.9 1.0 C 5:CYS110 5.0 63.4 1.0

Zinc binding site 2 out of 2 in the Structure of the Large Subunit of the Mammalian Mitochondrial Ribosome, Part 1 of 2


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 Mammalian Mitochondrial Ribosome, Part 1 of 2 within 5.0Å range: probe atom residue distance (Å) B Occ 9:Zn500 b:0.4 occ:1.00 SG 9:CYS89 2.3 64.3 1.0 SG 9:CYS73 2.3 66.9 1.0 ND1 9:HIS95 2.3 51.0 1.0 SG 9:CYS76 2.3 75.5 1.0 CE1 9:HIS95 3.2 55.0 1.0 CG 9:HIS95 3.3 45.1 1.0 CB 9:CYS89 3.5 57.6 1.0 CB 9:CYS73 3.6 56.8 1.0 CB 9:HIS95 3.7 38.5 1.0 N 9:CYS76 3.8 57.3 1.0 CB 9:CYS76 3.8 59.9 1.0 N 9:CYS73 3.8 63.0 1.0 CA 9:CYS76 4.1 50.7 1.0 CA 9:CYS73 4.2 66.2 1.0 C 9:ASP75 4.3 56.2 1.0 NE2 9:HIS95 4.4 45.0 1.0 OG1 9:THR91 4.4 74.9 1.0 CD2 9:HIS95 4.5 44.2 1.0 C 9:CYS73 4.6 72.7 1.0 C 9:ARG72 4.6 58.7 1.0 ND2 9:ASN92 4.6 59.4 1.0 N 9:ASP75 4.7 59.4 1.0 CB 9:ARG72 4.7 43.9 1.0 O 9:CYS73 4.7 74.1 1.0 CB 9:ASP75 4.8 63.1 1.0 N 9:ARG72 4.8 39.9 1.0 CA 9:ASP75 4.8 56.9 1.0 O 9:ASP75 4.8 61.5 1.0 CA 9:CYS89 4.8 45.9 1.0 CA 9:ARG72 4.9 46.7 1.0 O 9:ASN92 5.0 52.0 1.0

B.J.Greber, D.Boehringer, M.Leibundgut, P.Bieri, A.Leitner, N.Schmitz, R.Aebersold, N.Ban. The Complete Structure of the Large Subunit of the Mammalian Mitochondrial Ribosome Nature V. 515 283 2014.
ISSN: ISSN 0028-0836
PubMed: 25271403
DOI: 10.1038/NATURE13895