Zinc in PDB 8r57: Cryoem Structure of Wheat 40S Ribosomal Subunit, Head Domain

The structure of Cryoem Structure of Wheat 40S Ribosomal Subunit, Head Domain also contains other interesting chemical elements:

Magnesium	(Mg)	20 atoms
Potassium	(K)	6 atoms

The binding sites of Zinc atom in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Head Domain (pdb code 8r57). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Head Domain, PDB code: 8r57:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Head Domain


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryoem Structure of Wheat 40S Ribosomal Subunit, Head Domain within 5.0Å range: probe atom residue distance (Å) B Occ d:Zn101 b:27.2 occ:1.00 SG d:CYS39 2.1 11.4 1.0 SG d:CYS24 2.3 14.4 1.0 SG d:CYS42 2.4 12.3 1.0 SG d:CYS21 2.5 12.8 1.0 CB d:CYS42 3.2 12.3 1.0 CB d:CYS39 3.3 11.4 1.0 CB d:CYS24 3.3 14.4 1.0 CB d:CYS21 3.4 12.8 1.0 O2' A:G1440 4.1 11.2 1.0 N d:CYS39 4.2 11.4 1.0 N d:CYS24 4.2 14.4 1.0 CA d:CYS39 4.3 11.4 1.0 N d:CYS42 4.3 12.3 1.0 CA d:CYS42 4.3 12.3 1.0 CA d:CYS24 4.4 14.4 1.0 N3 A:G1440 4.8 11.2 1.0 CA d:CYS21 4.8 12.8 1.0 C d:VAL23 4.9 16.0 1.0 CB d:VAL23 4.9 16.0 1.0 K d:K102 5.0 12.7 1.0

Zinc binding site 2 out of 2 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Head Domain


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryoem Structure of Wheat 40S Ribosomal Subunit, Head Domain within 5.0Å range: probe atom residue distance (Å) B Occ f:Zn100 b:81.3 occ:1.00 SG f:CYS51 2.1 54.4 1.0 SG f:CYS66 2.3 56.6 1.0 SG f:CYS69 2.3 57.1 1.0 SG f:CYS46 3.1 55.0 1.0 CB f:CYS51 3.2 54.4 1.0 CB f:CYS66 3.4 56.6 1.0 CB f:CYS69 3.4 57.1 1.0 ND2 f:ASN48 3.5 54.5 1.0 N f:CYS69 3.6 57.1 1.0 CB f:CYS46 3.8 55.0 1.0 CB f:ASN48 4.0 54.5 1.0 CA f:CYS69 4.1 57.1 1.0 CG f:ASN48 4.1 54.5 1.0 CB f:LYS68 4.3 57.1 1.0 C f:LYS68 4.5 57.1 1.0 CA f:CYS51 4.6 54.4 1.0 CA f:CYS66 4.7 56.6 1.0 CA f:LYS68 4.8 57.1 1.0 N f:LYS68 4.8 57.1 1.0 C f:CYS69 4.8 57.1 1.0 C f:CYS66 5.0 56.6 1.0

O.V.Kravchenko, T.N.Baymukhametov, Z.A.Afonina, K.S.Vassilenko. High-Resolution Structure and Internal Mobility of A Plant 40S Ribosomal Subunit Int J Mol Sci V. 24 2023.
ISSN: ESSN 1422-0067
DOI: 10.3390/IJMS242417453