Zinc in PDB 1jr3: Crystal Structure of the Processivity Clamp Loader Gamma Complex of E. Coli Dna Polymerase III

All present enzymatic activity of Crystal Structure of the Processivity Clamp Loader Gamma Complex of E. Coli Dna Polymerase III:
2.7.7.7;

The structure of Crystal Structure of the Processivity Clamp Loader Gamma Complex of E. Coli Dna Polymerase III, PDB code: 1jr3 was solved by D.Jeruzalmi, M.O'donnell, J.Kuriyan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	500.00 / 2.70
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	95.698, 95.857, 285.410, 90.00, 90.00, 90.00
R / Rfree (%)	26.8 / 30.4

The binding sites of Zinc atom in the Crystal Structure of the Processivity Clamp Loader Gamma Complex of E. Coli Dna Polymerase III (pdb code 1jr3). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of the Processivity Clamp Loader Gamma Complex of E. Coli Dna Polymerase III, PDB code: 1jr3:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Crystal Structure of the Processivity Clamp Loader Gamma Complex of E. Coli Dna Polymerase III


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the Processivity Clamp Loader Gamma Complex of E. Coli Dna Polymerase III within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn400 b:0.1 occ:1.00 SG A:CYS79 2.3 0.1 1.0 SG A:CYS76 2.3 0.1 1.0 SG A:CYS64 2.3 0.1 1.0 SG A:CYS73 2.3 0.4 1.0 O A:CYS73 2.9 0.2 1.0 CB A:CYS76 3.2 0.4 1.0 CB A:CYS64 3.5 0.9 1.0 CB A:CYS79 3.5 0.1 1.0 N A:CYS73 3.8 0.4 1.0 CB A:CYS73 3.8 0.3 1.0 C A:CYS73 3.9 0.4 1.0 CA A:CYS64 4.0 0.4 1.0 CA A:CYS73 4.1 0.4 1.0 OG1 A:THR66 4.1 0.7 1.0 N A:GLU65 4.1 0.6 1.0 N A:CYS76 4.1 0.1 1.0 CA A:CYS76 4.2 0.7 1.0 N A:CYS79 4.3 0.9 1.0 O A:CYS76 4.4 0.5 1.0 CA A:CYS79 4.5 0.8 1.0 C A:CYS64 4.5 0.2 1.0 C A:CYS76 4.7 0.9 1.0 N A:THR66 4.7 0.2 1.0 C A:PRO72 4.8 0.4 1.0 CB A:THR66 4.9 0.5 1.0 O A:LYS60 5.0 0.7 1.0

Zinc binding site 2 out of 4 in the Crystal Structure of the Processivity Clamp Loader Gamma Complex of E. Coli Dna Polymerase III


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the Processivity Clamp Loader Gamma Complex of E. Coli Dna Polymerase III within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn400 b:0.7 occ:1.00 SG B:CYS73 2.3 1.0 1.0 SG B:CYS76 2.3 0.9 1.0 SG B:CYS79 2.3 0.5 1.0 SG B:CYS2064 2.3 0.6 1.0 CB B:CYS76 2.8 0.7 1.0 O B:CYS73 3.0 0.8 1.0 CB B:CYS73 3.6 0.7 1.0 CB B:CYS2064 3.6 0.4 1.0 CB B:CYS79 3.7 0.9 1.0 C B:CYS73 3.8 0.2 1.0 CA B:CYS76 3.8 0.9 1.0 N B:CYS73 3.9 0.3 1.0 N B:CYS76 3.9 0.4 1.0 CA B:CYS73 4.0 0.9 1.0 CA B:CYS2064 4.0 0.1 1.0 N B:CYS79 4.1 0.5 1.0 N B:GLU2065 4.2 0.8 1.0 C B:CYS76 4.5 1.0 1.0 CA B:CYS79 4.5 0.1 1.0 C B:CYS2064 4.7 0.1 1.0 O B:CYS76 4.7 0.9 1.0 C B:PRO72 4.8 1.0 1.0 N B:GLY74 4.9 0.1 1.0 CB B:ASN78 5.0 0.1 1.0

Zinc binding site 3 out of 4 in the Crystal Structure of the Processivity Clamp Loader Gamma Complex of E. Coli Dna Polymerase III


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of the Processivity Clamp Loader Gamma Complex of E. Coli Dna Polymerase III within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn400 b:44.8 occ:1.00 SG C:CYS73 2.3 52.6 1.0 SG C:CYS64 2.3 38.6 1.0 SG C:CYS76 2.3 52.8 1.0 SG C:CYS79 2.3 46.6 1.0 O C:CYS73 2.8 57.8 1.0 CB C:CYS64 3.3 42.5 1.0 CB C:CYS76 3.5 54.1 1.0 CB C:CYS79 3.6 46.4 1.0 N C:CYS73 3.7 54.0 1.0 CA C:CYS64 3.7 42.2 1.0 C C:CYS73 3.8 56.6 1.0 CB C:CYS73 3.8 54.2 1.0 N C:GLU65 3.9 43.7 1.0 N C:CYS76 4.0 55.3 1.0 CA C:CYS73 4.1 55.0 1.0 C C:CYS64 4.2 43.0 1.0 CA C:CYS76 4.3 53.8 1.0 OG1 C:THR66 4.3 53.0 1.0 N C:CYS79 4.4 47.6 1.0 C C:PRO72 4.5 53.7 1.0 CA C:CYS79 4.6 46.9 1.0 N C:THR66 4.6 47.7 1.0 CA C:PRO72 4.8 54.3 1.0 CB C:PRO72 4.8 53.8 1.0 N C:VAL75 4.9 54.0 1.0 C C:CYS76 4.9 53.1 1.0 O C:CYS76 4.9 53.5 1.0 N C:GLY74 4.9 57.4 1.0 CA C:GLU65 5.0 45.0 1.0

Zinc binding site 4 out of 4 in the Crystal Structure of the Processivity Clamp Loader Gamma Complex of E. Coli Dna Polymerase III


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of the Processivity Clamp Loader Gamma Complex of E. Coli Dna Polymerase III within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn400 b:0.3 occ:1.00 SG E:CYS65 2.3 0.4 1.0 SG E:CYS62 2.3 1.0 1.0 SG E:CYS50 2.3 0.1 1.0 SG E:CYS59 2.3 0.5 1.0 CB E:CYS65 3.3 0.2 1.0 CB E:CYS62 3.4 0.5 1.0 CB E:CYS50 3.6 0.2 1.0 N E:CYS59 3.6 0.1 1.0 CB E:CYS59 3.9 0.3 1.0 CA E:CYS50 3.9 0.4 1.0 N E:GLN51 3.9 0.4 1.0 CB E:SER58 4.0 0.1 1.0 N E:GLY60 4.0 0.1 1.0 N E:GLN52 4.0 0.5 1.0 N E:CYS65 4.1 0.5 1.0 N E:CYS62 4.2 0.5 1.0 CA E:CYS59 4.2 0.2 1.0 O E:GLN52 4.3 0.9 1.0 CA E:CYS65 4.3 0.5 1.0 CA E:CYS62 4.3 0.9 1.0 C E:CYS50 4.3 0.8 1.0 C E:GLN52 4.4 0.1 1.0 CA E:SER58 4.5 0.8 1.0 C E:SER58 4.6 0.8 1.0 OG E:SER58 4.6 0.7 1.0 C E:CYS59 4.7 0.0 1.0 CA E:GLN52 4.7 1.0 1.0 O E:CYS62 4.8 0.8 1.0 N E:PRO53 4.8 0.2 1.0 N E:HIS61 4.9 0.9 1.0 C E:CYS62 4.9 0.7 1.0 CA E:GLN51 4.9 0.8 1.0

D.Jeruzalmi, M.O'donnell, J.Kuriyan. Crystal Structure of the Processivity Clamp Loader Gamma (Gamma) Complex of E. Coli Dna Polymerase III. Cell(Cambridge,Mass.) V. 106 429 2001.
ISSN: ISSN 0092-8674
PubMed: 11525729
DOI: 10.1016/S0092-8674(01)00463-9