Zinc in PDB 7u58: Ycao-Mediated Atp-Dependent Peptidase Activity in Ribosomal Peptide Biosynthesis

The structure of Ycao-Mediated Atp-Dependent Peptidase Activity in Ribosomal Peptide Biosynthesis also contains other interesting chemical elements:

Magnesium

(Mg)

4 atoms

The binding sites of Zinc atom in the Ycao-Mediated Atp-Dependent Peptidase Activity in Ribosomal Peptide Biosynthesis (pdb code 7u58). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Ycao-Mediated Atp-Dependent Peptidase Activity in Ribosomal Peptide Biosynthesis, PDB code: 7u58:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Ycao-Mediated Atp-Dependent Peptidase Activity in Ribosomal Peptide Biosynthesis


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Ycao-Mediated Atp-Dependent Peptidase Activity in Ribosomal Peptide Biosynthesis within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn801 b:88.7 occ:1.00 SG A:CYS318 2.3 71.3 1.0 SG A:CYS202 2.3 63.6 1.0 SG A:CYS199 2.3 67.9 1.0 SG A:CYS321 2.3 72.3 1.0 CB A:CYS318 3.0 71.3 1.0 CB A:CYS321 3.3 72.3 1.0 CB A:CYS199 3.6 67.9 1.0 N A:CYS199 3.7 67.9 1.0 CB A:CYS202 3.9 63.6 1.0 N A:CYS321 3.9 72.3 1.0 N A:CYS202 4.0 63.6 1.0 CA A:CYS321 4.2 72.3 1.0 CA A:CYS199 4.2 67.9 1.0 CG A:GLU201 4.3 71.5 1.0 CA A:CYS202 4.4 63.6 1.0 CA A:CYS318 4.5 71.3 1.0 N A:GLY322 4.6 74.0 1.0 C A:CYS199 4.7 67.9 1.0 OE2 A:GLU201 4.8 71.5 1.0 O A:ARG315 4.8 67.6 1.0 C A:GLY198 4.8 66.8 1.0 C A:CYS321 4.9 72.3 1.0 O A:CYS199 4.9 67.9 1.0 C A:GLU201 4.9 71.5 1.0 CA A:GLY198 5.0 66.8 1.0 C A:CYS318 5.0 71.3 1.0

Zinc binding site 2 out of 2 in the Ycao-Mediated Atp-Dependent Peptidase Activity in Ribosomal Peptide Biosynthesis


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Ycao-Mediated Atp-Dependent Peptidase Activity in Ribosomal Peptide Biosynthesis within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn801 b:84.7 occ:1.00 SG B:CYS318 2.3 70.3 1.0 SG B:CYS321 2.3 73.5 1.0 SG B:CYS199 2.3 68.0 1.0 SG B:CYS202 2.3 66.0 1.0 CB B:CYS318 2.9 70.3 1.0 CB B:CYS321 3.2 73.5 1.0 CB B:CYS199 3.7 68.0 1.0 N B:CYS202 3.7 66.0 1.0 CB B:CYS202 3.9 66.0 1.0 N B:CYS199 3.9 68.0 1.0 N B:CYS321 3.9 73.5 1.0 CA B:CYS321 4.1 73.5 1.0 CB B:GLU201 4.2 70.9 1.0 CA B:CYS199 4.3 68.0 1.0 CA B:CYS202 4.3 66.0 1.0 CA B:CYS318 4.4 70.3 1.0 C B:GLU201 4.5 70.9 1.0 C B:CYS199 4.7 68.0 1.0 N B:GLU201 4.7 70.9 1.0 O B:ARG315 4.7 66.5 1.0 CA B:GLU201 4.7 70.9 1.0 C B:CYS321 4.8 73.5 1.0 O B:CYS199 4.8 68.0 1.0 C B:GLY198 5.0 67.3 1.0

Y.Zheng, S.K.Nair. Ycao-Mediated Atp-Dependent Peptidase Activity in Ribosomal Peptide Biosynthesis. Nat.Chem.Biol. 2022.
ISSN: ESSN 1552-4469
PubMed: 36280794
DOI: 10.1038/S41589-022-01141-0