Zinc in PDB 5aj3: Structure of the Small Subunit of the Mammalian Mitoribosome

The structure of Structure of the Small Subunit of the Mammalian Mitoribosome also contains other interesting chemical elements:

Magnesium

(Mg)

144 atoms

The binding sites of Zinc atom in the Structure of the Small Subunit of the Mammalian Mitoribosome (pdb code 5aj3). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Structure of the Small Subunit of the Mammalian Mitoribosome, PDB code: 5aj3:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Structure of the Small Subunit of the Mammalian Mitoribosome


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 Small Subunit of the Mammalian Mitoribosome within 5.0Å range: probe atom residue distance (Å) B Occ R:Zn500 b:28.4 occ:1.00 SG R:CYS101 2.2 40.4 1.0 SG F:CYS105 2.3 48.9 1.0 SG R:CYS66 2.3 36.1 1.0 SG R:CYS69 2.3 57.3 1.0 CB F:CYS105 2.9 47.9 1.0 CB R:CYS66 3.2 25.0 1.0 CB R:CYS101 3.4 25.3 1.0 CB R:CYS69 3.4 44.1 1.0 CA R:CYS69 3.6 42.0 1.0 N R:CYS66 3.9 38.6 1.0 CA R:CYS66 4.1 27.0 1.0 N R:CYS69 4.1 40.4 1.0 CG R:LYS104 4.3 28.0 1.0 CA F:CYS105 4.4 66.4 1.0 CA R:CYS101 4.6 21.8 1.0 O R:CYS66 4.7 33.5 1.0 N R:CYS101 4.7 21.6 1.0 C R:CYS66 4.8 29.5 1.0 C R:CYS69 4.9 41.7 1.0 CB R:LYS104 5.0 24.4 1.0 C R:LEU68 5.0 36.1 1.0

Zinc binding site 2 out of 3 in the Structure of the Small Subunit of the Mammalian Mitoribosome


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 Small Subunit of the Mammalian Mitoribosome within 5.0Å range: probe atom residue distance (Å) B Occ c:Zn500 b:38.0 occ:1.00 SG c:CYS141 2.2 86.1 1.0 SG c:CYS149 2.2 0.3 1.0 SG c:CYS139 2.3 59.5 1.0 SG P:CYS26 2.3 38.0 1.0 CB c:CYS149 2.9 58.8 1.0 CB c:CYS139 3.1 55.2 1.0 CB c:CYS141 3.2 77.2 1.0 CB P:CYS26 3.4 46.3 1.0 CA c:CYS141 3.8 60.1 1.0 N c:CYS141 3.9 54.2 1.0 CA c:CYS149 4.4 54.6 1.0 N P:CYS26 4.4 45.7 1.0 CA P:CYS26 4.5 43.8 1.0 CA c:CYS139 4.5 54.7 1.0 C c:CYS139 4.8 50.0 1.0 C c:MET140 5.0 50.6 1.0

Zinc binding site 3 out of 3 in the Structure of the Small Subunit of the Mammalian Mitoribosome


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of the Small Subunit of the Mammalian Mitoribosome within 5.0Å range: probe atom residue distance (Å) B Occ p:Zn500 b:52.1 occ:1.00 SG p:CYS105 2.3 39.0 1.0 SG p:CYS94 2.3 62.1 1.0 SG p:CYS108 2.3 59.5 1.0 SG p:CYS143 2.3 62.8 1.0 CB p:CYS105 3.2 30.8 1.0 CB p:CYS108 3.3 51.8 1.0 CB p:CYS94 3.3 48.0 1.0 CB p:CYS143 3.3 42.1 1.0 CG p:GLN146 4.0 46.0 1.0 N p:CYS143 4.1 29.2 1.0 N p:CYS105 4.2 37.3 1.0 N p:CYS94 4.2 45.1 1.0 CA p:CYS143 4.3 29.7 1.0 CA p:CYS105 4.3 36.0 1.0 CA p:CYS94 4.4 50.6 1.0 N p:CYS108 4.5 44.4 1.0 CA p:CYS108 4.5 46.2 1.0 CB p:GLN146 4.8 33.5 1.0

B.J.Greber, P.Bieri, M.Leibundgut, A.Leitner, R.Aebersold, D.Boehringer, N.Ban. Ribosome. the Complete Structure of the 55S Mammalian Mitochondrial Ribosome. Science V. 348 303 2015.
ISSN: ISSN 0036-8075
PubMed: 25837512
DOI: 10.1126/SCIENCE.AAA3872