Zinc in PDB 8gj0: E. Coli Clamp Loader with Open Clamp on Primed Template Dna (Form 1)

All present enzymatic activity of E. Coli Clamp Loader with Open Clamp on Primed Template Dna (Form 1):
2.7.7.7;

The structure of E. Coli Clamp Loader with Open Clamp on Primed Template Dna (Form 1) also contains other interesting chemical elements:

Aluminium	(Al)	3 atoms
Fluorine	(F)	12 atoms
Magnesium	(Mg)	3 atoms

The binding sites of Zinc atom in the E. Coli Clamp Loader with Open Clamp on Primed Template Dna (Form 1) (pdb code 8gj0). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the E. Coli Clamp Loader with Open Clamp on Primed Template Dna (Form 1), PDB code: 8gj0:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the E. Coli Clamp Loader with Open Clamp on Primed Template Dna (Form 1)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of E. Coli Clamp Loader with Open Clamp on Primed Template Dna (Form 1) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn704 b:239.6 occ:1.00 SG B:CYS76 2.3 163.7 1.0 SG B:CYS73 2.3 163.4 1.0 SG B:CYS79 2.3 143.3 1.0 SG B:CYS64 2.3 140.3 1.0 H B:GLY74 3.1 166.5 1.0 H B:CYS76 3.2 157.2 1.0 HB3 B:CYS76 3.2 156.7 1.0 H B:CYS73 3.3 156.9 1.0 HB2 B:CYS79 3.4 145.0 1.0 CB B:CYS76 3.4 157.4 1.0 H B:GLU65 3.5 141.5 1.0 HA B:CYS64 3.5 129.9 1.0 CB B:CYS79 3.5 143.3 1.0 CB B:CYS64 3.6 129.8 1.0 H B:CYS79 3.7 144.9 1.0 CB B:CYS73 3.7 158.6 1.0 HB2 B:CYS64 3.7 129.3 1.0 HB3 B:CYS73 3.8 157.4 1.0 N B:GLY74 3.8 168.4 1.0 H B:VAL75 3.8 157.5 1.0 N B:CYS73 3.9 158.0 1.0 N B:CYS76 3.9 156.0 1.0 CA B:CYS64 4.0 128.8 1.0 N B:GLU65 4.1 141.4 1.0 HB2 B:CYS76 4.2 156.4 1.0 CA B:CYS76 4.2 154.8 1.0 HB3 B:CYS79 4.2 144.7 1.0 CA B:CYS73 4.2 158.8 1.0 H B:THR66 4.3 135.3 1.0 HG1 B:THR66 4.3 135.4 1.0 N B:CYS79 4.3 144.7 1.0 HG23 B:THR66 4.3 134.7 1.0 HB3 B:CYS64 4.4 129.1 1.0 HB2 B:PRO72 4.4 131.1 1.0 HB2 B:CYS73 4.5 157.6 1.0 C B:CYS73 4.5 158.9 1.0 CA B:CYS79 4.5 145.3 1.0 N B:VAL75 4.5 158.8 1.0 HB2 B:ASN78 4.6 143.1 1.0 C B:CYS64 4.6 129.8 1.0 HB2 B:GLU65 4.6 141.5 1.0 HA2 B:GLY74 4.6 166.7 1.0 CA B:GLY74 4.7 168.0 1.0 C B:CYS76 4.8 156.3 1.0 O B:CYS76 4.8 157.0 1.0 HA B:CYS79 4.8 144.8 1.0 HG3 B:GLU65 4.8 142.3 1.0 HA B:PRO72 4.8 130.6 1.0 C B:PRO72 4.9 132.8 1.0

Zinc binding site 2 out of 4 in the E. Coli Clamp Loader with Open Clamp on Primed Template Dna (Form 1)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of E. Coli Clamp Loader with Open Clamp on Primed Template Dna (Form 1) within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn703 b:212.7 occ:1.00 SG C:CYS76 2.3 150.9 1.0 SG C:CYS73 2.3 146.6 1.0 SG C:CYS79 2.3 150.9 1.0 SG C:CYS64 2.3 135.2 1.0 H C:GLY74 3.1 144.7 1.0 HB3 C:CYS76 3.1 146.7 1.0 H C:CYS76 3.2 146.4 1.0 CB C:CYS76 3.3 146.2 1.0 H C:CYS73 3.4 139.7 1.0 HB2 C:CYS79 3.4 145.2 1.0 CB C:CYS79 3.5 148.5 1.0 H C:CYS79 3.6 144.9 1.0 HA C:CYS64 3.7 127.0 1.0 CB C:CYS64 3.7 129.1 1.0 CB C:CYS73 3.8 141.6 1.0 H C:GLU65 3.8 137.8 1.0 N C:GLY74 3.8 145.7 1.0 HB2 C:CYS64 3.9 127.2 1.0 H C:VAL75 3.9 147.8 1.0 N C:CYS76 3.9 146.1 1.0 N C:CYS73 4.0 141.8 1.0 HB3 C:CYS73 4.0 140.4 1.0 HB2 C:CYS76 4.1 145.7 1.0 CA C:CYS76 4.2 146.2 1.0 HG1 C:THR66 4.2 124.8 1.0 HB3 C:CYS79 4.2 145.4 1.0 CA C:CYS64 4.2 126.8 1.0 N C:CYS79 4.3 146.9 1.0 CA C:CYS73 4.3 141.0 1.0 HG23 C:THR66 4.4 124.4 1.0 HB2 C:ASN78 4.4 127.4 1.0 N C:GLU65 4.4 136.0 1.0 H C:THR66 4.5 124.3 1.0 CA C:CYS79 4.5 147.3 1.0 HB3 C:CYS64 4.5 126.5 1.0 HB2 C:PRO72 4.5 121.7 1.0 HB2 C:CYS73 4.5 140.2 1.0 O C:CYS76 4.6 148.2 1.0 C C:CYS73 4.6 138.4 1.0 N C:VAL75 4.6 147.2 1.0 HA2 C:GLY74 4.6 145.1 1.0 C C:CYS76 4.7 146.6 1.0 CA C:GLY74 4.7 145.5 1.0 HA C:CYS79 4.8 144.6 1.0 C C:CYS64 4.8 125.4 1.0 HA C:PRO72 4.9 121.5 1.0 HB2 C:GLU65 4.9 138.1 1.0 C C:PRO72 4.9 124.5 1.0 OG1 C:THR66 4.9 128.3 1.0

Zinc binding site 3 out of 4 in the E. Coli Clamp Loader with Open Clamp on Primed Template Dna (Form 1)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of E. Coli Clamp Loader with Open Clamp on Primed Template Dna (Form 1) within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn705 b:197.3 occ:1.00 SG D:CYS76 2.3 133.1 1.0 SG D:CYS73 2.3 135.8 1.0 SG D:CYS79 2.3 120.7 1.0 SG D:CYS64 2.3 116.5 1.0 H D:GLY74 3.2 135.6 1.0 H D:CYS76 3.2 128.8 1.0 HB3 D:CYS76 3.2 127.7 1.0 H D:CYS73 3.3 127.0 1.0 HB2 D:CYS79 3.4 118.9 1.0 CB D:CYS76 3.4 124.3 1.0 H D:GLU65 3.5 125.4 1.0 CB D:CYS79 3.5 117.0 1.0 HA D:CYS64 3.5 109.0 1.0 H D:CYS79 3.6 118.0 1.0 CB D:CYS64 3.7 111.2 1.0 CB D:CYS73 3.8 127.2 1.0 HB2 D:CYS64 3.9 109.4 1.0 N D:GLY74 3.9 138.4 1.0 N D:CYS76 3.9 130.3 1.0 N D:CYS73 3.9 127.3 1.0 HB3 D:CYS73 3.9 127.7 1.0 H D:VAL75 4.0 131.8 1.0 CA D:CYS64 4.1 105.9 1.0 HB2 D:CYS76 4.1 127.2 1.0 CA D:CYS76 4.2 124.2 1.0 N D:GLU65 4.2 121.2 1.0 HB3 D:CYS79 4.2 118.1 1.0 N D:CYS79 4.3 113.8 1.0 CA D:CYS73 4.3 128.6 1.0 H D:THR66 4.4 113.6 1.0 HB2 D:ASN78 4.4 119.0 1.0 HB3 D:CYS64 4.5 108.8 1.0 CA D:CYS79 4.5 116.9 1.0 HB2 D:CYS73 4.5 128.1 1.0 HG23 D:THR66 4.5 113.6 1.0 HB2 D:GLU65 4.6 126.3 1.0 N D:VAL75 4.6 133.1 1.0 C D:CYS73 4.6 130.2 1.0 HB2 D:PRO72 4.6 106.7 1.0 C D:CYS64 4.6 106.8 1.0 HA2 D:GLY74 4.7 135.7 1.0 O D:CYS76 4.7 129.1 1.0 C D:CYS76 4.7 125.4 1.0 CA D:GLY74 4.8 135.8 1.0 HA D:PRO72 4.8 106.8 1.0 HA D:CYS79 4.8 118.0 1.0 HG3 D:GLU65 4.9 126.8 1.0 C D:PRO72 4.9 110.8 1.0

Zinc binding site 4 out of 4 in the E. Coli Clamp Loader with Open Clamp on Primed Template Dna (Form 1)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of E. Coli Clamp Loader with Open Clamp on Primed Template Dna (Form 1) within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn2001 b:218.4 occ:1.00 SG E:CYS62 2.3 144.1 1.0 SG E:CYS65 2.3 142.8 1.0 SG E:CYS59 2.3 157.1 1.0 SG E:CYS50 2.3 133.8 1.0 H E:GLY60 2.9 140.0 1.0 H E:CYS62 3.1 137.3 1.0 H E:CYS59 3.2 144.4 1.0 HB2 E:CYS65 3.4 136.5 1.0 HB3 E:CYS62 3.4 136.5 1.0 H E:GLN51 3.4 127.9 1.0 HA E:CYS50 3.4 121.4 1.0 CB E:CYS62 3.5 134.6 1.0 CB E:CYS50 3.5 121.6 1.0 CB E:CYS65 3.5 137.0 1.0 H E:GLN52 3.5 144.3 1.0 HB2 E:CYS50 3.6 121.7 1.0 H E:CYS65 3.6 136.1 1.0 N E:GLY60 3.7 140.1 1.0 CB E:CYS59 3.7 144.3 1.0 H E:HIS61 3.8 144.6 1.0 N E:CYS59 3.8 143.9 1.0 N E:CYS62 3.8 138.6 1.0 HB3 E:CYS59 3.8 144.9 1.0 CA E:CYS50 3.9 117.3 1.0 HB2 E:SER58 3.9 133.7 1.0 N E:GLN51 4.0 125.3 1.0 CA E:CYS59 4.1 143.9 1.0 CA E:CYS62 4.2 135.5 1.0 HB3 E:CYS65 4.2 136.2 1.0 N E:CYS65 4.2 138.0 1.0 HB2 E:CYS62 4.3 136.3 1.0 HB3 E:CYS50 4.3 121.1 1.0 N E:HIS61 4.3 146.1 1.0 C E:CYS59 4.4 143.5 1.0 N E:GLN52 4.4 146.6 1.0 CA E:CYS65 4.4 136.1 1.0 C E:CYS50 4.5 119.6 1.0 HB2 E:CYS59 4.5 144.9 1.0 HA2 E:GLY60 4.5 139.8 1.0 CA E:GLY60 4.5 139.4 1.0 HB2 E:GLN52 4.6 144.3 1.0 HA E:SER58 4.7 133.2 1.0 HA E:CYS65 4.7 136.0 1.0 C E:SER58 4.7 136.3 1.0 O E:GLN52 4.7 145.6 1.0 C E:CYS62 4.8 134.2 1.0 O E:CYS62 4.8 135.2 1.0 C E:GLY60 4.8 141.3 1.0 CB E:SER58 4.8 133.8 1.0 HB2 E:GLN51 4.9 127.8 1.0 C E:GLN52 4.9 143.9 1.0 C E:HIS61 4.9 142.9 1.0 HH21 E:ARG46 5.0 115.8 1.0

Z.-Q.Xu, A.J.Oakley, N.E.Dixon. Structural Characterisation of the Complete Cycle of Sliding Clamp Loading in E. Coli To Be Published.