Zinc in PDB 8gzp: Cryo-Em Structure of the NS5-Sla Complex

The structure of Cryo-Em Structure of the NS5-Sla Complex also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Cryo-Em Structure of the NS5-Sla Complex (pdb code 8gzp). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryo-Em Structure of the NS5-Sla Complex, PDB code: 8gzp:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of the NS5-Sla Complex


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 NS5-Sla Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1001 b:72.7 occ:1.00 NE2 A:HIS714 2.0 44.9 1.0 NE2 A:HIS712 2.0 43.9 1.0 SG A:CYS728 2.3 46.2 1.0 SG A:CYS847 2.3 56.0 1.0 CD2 A:HIS714 2.9 44.9 1.0 CD2 A:HIS712 2.9 43.9 1.0 CE1 A:HIS712 3.0 43.9 1.0 CB A:CYS728 3.0 46.2 1.0 CE1 A:HIS714 3.0 44.9 1.0 CB A:CYS847 3.5 56.0 1.0 ND1 A:HIS712 4.0 43.9 1.0 CG A:HIS714 4.0 44.9 1.0 CG A:HIS712 4.0 43.9 1.0 ND1 A:HIS714 4.1 44.9 1.0 CA A:CYS728 4.3 46.2 1.0 C A:CYS728 4.4 46.2 1.0 NH1 A:ARG769 4.4 51.3 1.0 N A:ARG729 4.6 48.0 1.0 CD1 A:LEU839 4.6 52.8 1.0 O A:CYS728 4.8 46.2 1.0 CA A:CYS847 4.9 56.0 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of the NS5-Sla Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of the NS5-Sla Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1002 b:92.2 occ:1.00 OE2 A:GLU437 2.0 79.0 1.0 NE2 A:HIS441 2.3 70.9 1.0 SG A:CYS446 2.3 71.5 1.0 SG A:CYS449 2.3 65.7 1.0 CB A:CYS449 3.0 65.7 1.0 CB A:CYS446 3.0 71.5 1.0 CD A:GLU437 3.1 79.0 1.0 CD2 A:HIS441 3.2 70.9 1.0 CE1 A:HIS441 3.3 70.9 1.0 CA A:CYS446 3.4 71.5 1.0 N A:GLY447 3.7 69.5 1.0 N A:CYS449 3.8 65.7 1.0 CG A:GLU437 3.8 79.0 1.0 C A:CYS446 3.9 71.5 1.0 OE1 A:GLU437 3.9 79.0 1.0 CA A:CYS449 4.0 65.7 1.0 N A:SER448 4.2 70.7 1.0 CG A:HIS441 4.4 70.9 1.0 ND1 A:HIS441 4.4 70.9 1.0 C A:SER448 4.5 70.7 1.0 N A:CYS446 4.8 71.5 1.0 CA A:GLY447 4.8 69.5 1.0 O A:LYS445 4.9 70.5 1.0 O A:CYS446 4.9 71.5 1.0 C A:GLY447 4.9 69.5 1.0

T.Osawa, M.Aoki, H.Ehara, S.I.Sekine. Structures of Dengue Virus Rna Replicase Complexes. Mol.Cell 2023.
ISSN: ISSN 1097-2765
PubMed: 37478848
DOI: 10.1016/J.MOLCEL.2023.06.023