Zinc in PDB 6cbs: Dnag Primase C-Terminal Domain Complex with Ssb C-Terminal Peptide

The structure of Dnag Primase C-Terminal Domain Complex with Ssb C-Terminal Peptide, PDB code: 6cbs was solved by A.J.Oakley, A.T.Y.Lo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.57 / 1.85
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	69.895, 115.202, 45.817, 90.00, 90.00, 90.00
R / Rfree (%)	19.2 / 22.4

The binding sites of Zinc atom in the Dnag Primase C-Terminal Domain Complex with Ssb C-Terminal Peptide (pdb code 6cbs). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Dnag Primase C-Terminal Domain Complex with Ssb C-Terminal Peptide, PDB code: 6cbs:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in the Dnag Primase C-Terminal Domain Complex with Ssb C-Terminal Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Dnag Primase C-Terminal Domain Complex with Ssb C-Terminal Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn601 b:30.8 occ:1.00 NE2 A:HIS506 2.0 37.8 1.0 OXT A:ACY604 2.3 43.3 1.0 O A:ACY604 2.3 32.3 1.0 C A:ACY604 2.6 36.0 1.0 O A:HOH844 2.6 39.1 1.0 CE1 A:HIS506 2.9 39.0 1.0 CD2 A:HIS506 3.2 35.1 1.0 ND1 A:HIS506 4.1 38.9 1.0 CH3 A:ACY604 4.1 29.4 1.0 CG A:HIS506 4.2 34.5 1.0 OG1 A:THR491 4.3 19.9 1.0 O A:HOH754 4.7 21.0 1.0

Zinc binding site 2 out of 6 in the Dnag Primase C-Terminal Domain Complex with Ssb C-Terminal Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Dnag Primase C-Terminal Domain Complex with Ssb C-Terminal Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn602 b:15.7 occ:1.00 O A:ACY605 2.0 17.4 1.0 OD1 A:ASP537 2.0 17.5 1.0 NE2 A:HIS541 2.0 15.9 1.0 OD2 A:ASP537 2.4 16.9 1.0 CG A:ASP537 2.5 15.5 1.0 C A:ACY605 2.8 23.9 1.0 CD2 A:HIS541 3.0 14.3 1.0 CE1 A:HIS541 3.1 17.4 1.0 OXT A:ACY605 3.1 24.9 1.0 O A:HOH760 3.5 24.8 1.0 CB A:ASP537 4.0 13.9 1.0 ND1 A:HIS541 4.1 15.9 1.0 CG A:HIS541 4.1 13.4 1.0 CH3 A:ACY605 4.3 25.5 1.0 O A:ASP537 4.6 14.9 1.0 O A:HOH735 4.7 19.2 1.0 C A:ASP537 4.8 14.5 1.0 CA A:ASP537 4.8 16.2 1.0

Zinc binding site 3 out of 6 in the Dnag Primase C-Terminal Domain Complex with Ssb C-Terminal Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Dnag Primase C-Terminal Domain Complex with Ssb C-Terminal Peptide within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn603 b:71.0 occ:1.00 OE1 A:GLU476 2.2 74.0 1.0 O A:HOH725 2.2 31.6 1.0 O A:HOH845 2.4 47.8 1.0 O A:HOH787 2.4 25.5 1.0 CD A:GLU476 3.1 66.8 1.0 OE2 A:GLU476 3.4 72.8 1.0 OE2 A:GLU487 3.9 36.8 1.0 NH2 A:ARG486 3.9 25.7 1.0 O A:HOH846 4.1 45.0 1.0 O A:HOH854 4.1 38.6 1.0 CA A:GLY483 4.2 21.2 1.0 O A:GLY483 4.3 18.2 1.0 CG A:GLU476 4.5 55.0 1.0 C A:GLY483 4.6 19.0 1.0 CG A:GLU487 4.6 25.3 1.0 NE A:ARG486 4.7 22.3 1.0 CD A:GLU487 4.7 29.0 1.0 CZ A:ARG486 4.8 23.4 1.0 O A:HOH861 4.9 40.7 1.0 CB A:GLU476 4.9 39.5 1.0

Zinc binding site 4 out of 6 in the Dnag Primase C-Terminal Domain Complex with Ssb C-Terminal Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Dnag Primase C-Terminal Domain Complex with Ssb C-Terminal Peptide within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn601 b:15.3 occ:1.00 O B:ACY605 1.9 18.1 1.0 OD1 B:ASP537 2.0 20.7 1.0 NE2 B:HIS541 2.0 20.7 1.0 OD2 B:ASP537 2.5 17.0 1.0 CG B:ASP537 2.6 17.0 1.0 C B:ACY605 2.8 25.8 1.0 CE1 B:HIS541 3.0 20.9 1.0 CD2 B:HIS541 3.0 17.8 1.0 OXT B:ACY605 3.1 25.8 1.0 O B:HOH774 3.6 22.0 1.0 CB B:ASP537 4.1 12.4 1.0 ND1 B:HIS541 4.1 18.7 1.0 CG B:HIS541 4.2 17.3 1.0 CH3 B:ACY605 4.2 22.3 1.0 O B:ASP537 4.6 16.5 1.0 C B:ASP537 4.9 14.5 1.0 CA B:ASP537 4.9 13.4 1.0 O B:HOH759 4.9 18.4 1.0

Zinc binding site 5 out of 6 in the Dnag Primase C-Terminal Domain Complex with Ssb C-Terminal Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Dnag Primase C-Terminal Domain Complex with Ssb C-Terminal Peptide within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn602 b:42.8 occ:1.00 NE2 B:HIS506 2.1 45.9 1.0 O B:HOH769 2.3 39.6 1.0 O B:HOH722 2.9 49.7 1.0 CD2 B:HIS506 3.0 39.9 1.0 CE1 B:HIS506 3.1 39.5 1.0 OE1 B:GLN495 3.8 47.2 1.0 ND1 B:HIS506 4.2 40.3 1.0 CG B:HIS506 4.2 38.0 1.0

Zinc binding site 6 out of 6 in the Dnag Primase C-Terminal Domain Complex with Ssb C-Terminal Peptide


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Dnag Primase C-Terminal Domain Complex with Ssb C-Terminal Peptide within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn603 b:19.3 occ:0.55 OE1 B:GLU472 2.0 35.8 1.0 O B:ACY604 2.2 31.8 1.0 OXT B:ACY604 2.7 40.1 1.0 C B:ACY604 2.7 35.0 1.0 CD B:GLU472 2.8 37.3 1.0 OE2 B:GLU472 3.0 33.7 1.0 O B:HOH706 3.7 28.8 1.0 CG B:GLU472 4.1 35.4 1.0 CH3 B:ACY604 4.2 30.7 1.0 CB B:PRO470 4.6 19.9 1.0 O B:HOH750 4.6 34.8 1.0 CA B:PRO470 4.8 18.8 1.0

A.J.Oakley, A.T.Y.Lo. Dnag Primase C-Terminal Domain Complex with Ssb C-Terminal Peptide To Be Published.