Zinc in PDB 8vas: Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in An Altered-Collar Conformation

All present enzymatic activity of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in An Altered-Collar Conformation:
2.7.7.7;

The structure of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in An Altered-Collar Conformation also contains other interesting chemical elements:

Fluorine	(F)	9 atoms
Magnesium	(Mg)	3 atoms

The binding sites of Zinc atom in the Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in An Altered-Collar Conformation (pdb code 8vas). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in An Altered-Collar Conformation, PDB code: 8vas:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in An Altered-Collar Conformation


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 E. Coli Clamp Loader Bound to the Beta Clamp in An Altered-Collar Conformation within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn401 b:126.7 occ:1.00 SG B:CYS76 2.3 92.2 1.0 SG B:CYS73 2.3 77.1 1.0 SG B:CYS64 2.3 72.8 1.0 SG B:CYS79 2.3 89.2 1.0 CB B:CYS64 2.6 72.8 1.0 CB B:CYS73 2.7 77.1 1.0 CB B:CYS79 3.0 89.2 1.0 CA B:CYS64 3.3 72.8 1.0 O B:ASN63 3.5 55.9 1.0 OD1 B:ASN78 3.6 83.9 1.0 O B:LYS60 3.9 54.0 1.0 CB B:CYS76 4.0 92.2 1.0 CA B:CYS73 4.2 77.1 1.0 CA B:CYS79 4.2 89.2 1.0 N B:CYS64 4.2 72.8 1.0 N B:CYS79 4.3 89.2 1.0 C B:ASN63 4.3 55.9 1.0 N B:GLU65 4.4 81.3 1.0 C B:CYS64 4.4 72.8 1.0 CD B:LYS60 4.4 54.0 1.0 O B:CYS76 4.6 92.2 1.0 CG B:ASN78 4.7 83.9 1.0 NZ B:LYS60 4.8 54.0 1.0 CE B:LYS60 4.8 54.0 1.0 CA B:CYS76 4.9 92.2 1.0 N B:CYS73 5.0 77.1 1.0

Zinc binding site 2 out of 4 in the Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in An Altered-Collar Conformation


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 E. Coli Clamp Loader Bound to the Beta Clamp in An Altered-Collar Conformation within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn401 b:157.4 occ:1.00 SG C:CYS76 2.3 89.3 1.0 SG C:CYS73 2.3 81.1 1.0 SG C:CYS79 2.3 78.0 1.0 SG C:CYS64 2.3 62.1 1.0 CB C:CYS79 3.3 78.0 1.0 CB C:CYS64 3.4 62.1 1.0 CB C:CYS76 3.4 89.3 1.0 CA C:CYS64 3.7 62.1 1.0 CB C:CYS73 3.8 81.1 1.0 O C:CYS73 3.8 81.1 1.0 N C:GLU65 3.8 71.3 1.0 N C:CYS73 4.0 81.1 1.0 CA C:CYS73 4.2 81.1 1.0 C C:CYS73 4.2 81.1 1.0 C C:CYS64 4.3 62.1 1.0 N C:CYS76 4.3 89.3 1.0 CA C:CYS76 4.4 89.3 1.0 N C:CYS79 4.4 78.0 1.0 CA C:CYS79 4.5 78.0 1.0 O C:CYS76 4.9 89.3 1.0 C C:CYS76 4.9 89.3 1.0 CB C:GLU65 5.0 71.3 1.0 N C:CYS64 5.0 62.1 1.0 CA C:GLU65 5.0 71.3 1.0

Zinc binding site 3 out of 4 in the Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in An Altered-Collar Conformation


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 E. Coli Clamp Loader Bound to the Beta Clamp in An Altered-Collar Conformation within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn401 b:78.9 occ:1.00 CB D:CYS73 1.2 71.2 1.0 CA D:CYS73 1.8 71.2 1.0 N D:CYS73 2.0 71.2 1.0 SG D:CYS76 2.3 63.0 1.0 SG D:CYS64 2.3 48.7 1.0 SG D:CYS73 2.3 71.2 1.0 C D:CYS73 2.8 71.2 1.0 N D:GLY74 2.9 66.8 1.0 SG D:CYS79 3.1 56.9 1.0 C D:PRO72 3.3 57.8 1.0 CB D:CYS76 3.7 63.0 1.0 O D:CYS73 3.9 71.2 1.0 CB D:CYS64 3.9 48.7 1.0 N D:CYS76 4.0 63.0 1.0 CB D:CYS79 4.1 56.9 1.0 O D:PRO72 4.1 57.8 1.0 CA D:PRO72 4.2 57.8 1.0 CA D:GLY74 4.3 66.8 1.0 N D:VAL75 4.3 66.1 1.0 CA D:CYS76 4.5 63.0 1.0 C D:GLY74 4.7 66.8 1.0 CB D:PRO72 4.8 57.8 1.0 CA D:CYS64 4.9 48.7 1.0 OG1 D:THR66 4.9 58.7 1.0 OE1 D:GLU65 4.9 56.0 1.0

Zinc binding site 4 out of 4 in the Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in An Altered-Collar Conformation


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of the E. Coli Clamp Loader Bound to the Beta Clamp in An Altered-Collar Conformation within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn401 b:135.1 occ:1.00 SG E:CYS65 2.3 93.0 1.0 SG E:CYS62 2.3 93.2 1.0 SG E:CYS50 2.3 65.9 1.0 SG E:CYS59 2.3 87.5 1.0 OG E:SER58 3.2 82.3 1.0 CB E:CYS62 3.4 93.2 1.0 CB E:CYS65 3.5 93.0 1.0 N E:GLY60 3.7 90.1 1.0 N E:CYS62 3.8 93.2 1.0 CB E:CYS50 3.8 65.9 1.0 CB E:CYS59 3.9 87.5 1.0 N E:CYS59 3.9 87.5 1.0 O E:GLN52 4.0 79.8 1.0 CA E:CYS62 4.1 93.2 1.0 N E:CYS65 4.1 93.0 1.0 O E:CYS62 4.2 93.2 1.0 CA E:CYS59 4.3 87.5 1.0 CA E:CYS65 4.3 93.0 1.0 N E:HIS61 4.4 90.6 1.0 C E:CYS59 4.5 87.5 1.0 CA E:GLY60 4.5 90.1 1.0 CA E:CYS50 4.5 65.9 1.0 CB E:SER58 4.6 82.3 1.0 C E:CYS62 4.6 93.2 1.0 C E:GLN52 4.7 79.8 1.0 C E:GLY60 4.8 90.1 1.0 C E:SER58 4.8 82.3 1.0 C E:HIS61 4.9 90.6 1.0 N E:GLN52 5.0 79.8 1.0

J.T.Landeck, J.Pajak, E.K.Norman, E.L.Sedivy, B.A.Kelch. Differences Between Bacteria and Eukaryotes in Clamp Loader Mechanism, A Conserved Process Underlying Dna Replication. J.Biol.Chem. 07166 2024.
ISSN: ESSN 1083-351X
PubMed: 38490435
DOI: 10.1016/J.JBC.2024.107166