Zinc in PDB 1g71: Crystal Structure of Pyrococcus Furiosus Dna Primase

The structure of Crystal Structure of Pyrococcus Furiosus Dna Primase, PDB code: 1g71 was solved by M.A.Augustin, R.Huber, J.T.Kaiser, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	500.00 / 2.30
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	129.883, 136.326, 61.877, 90.00, 90.00, 90.00
R / Rfree (%)	21.1 / 24.9

The structure of Crystal Structure of Pyrococcus Furiosus Dna Primase also contains other interesting chemical elements:

Chlorine

(Cl)

6 atoms

The binding sites of Zinc atom in the Crystal Structure of Pyrococcus Furiosus Dna Primase (pdb code 1g71). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Pyrococcus Furiosus Dna Primase, PDB code: 1g71:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Pyrococcus Furiosus Dna Primase


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 Pyrococcus Furiosus Dna Primase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn348 b:29.9 occ:1.00 NE2 A:HIS108 2.2 30.7 1.0 SG A:CYS117 2.3 23.1 1.0 SG A:CYS114 2.3 26.5 1.0 SG A:CYS106 2.4 27.3 1.0 CD2 A:HIS108 3.1 31.7 1.0 CB A:CYS114 3.2 25.2 1.0 CE1 A:HIS108 3.2 31.2 1.0 CB A:CYS117 3.3 21.3 1.0 N A:CYS114 3.4 26.2 1.0 CB A:CYS106 3.5 30.4 1.0 N A:CYS117 3.5 21.5 1.0 CA A:CYS114 3.8 25.6 1.0 CA A:CYS117 4.0 21.4 1.0 C A:VAL113 4.2 26.8 1.0 O A:HOH395 4.2 27.4 1.0 O A:CYS114 4.2 25.8 1.0 CG A:HIS108 4.2 33.1 1.0 ND1 A:HIS108 4.2 32.6 1.0 C A:CYS114 4.2 25.5 1.0 CA A:VAL113 4.5 26.5 1.0 C A:ILE116 4.6 23.3 1.0 CD A:LYS104 4.6 22.6 1.0 CB A:ILE116 4.7 24.8 1.0 NZ A:LYS104 4.7 24.0 1.0 N A:ILE116 4.8 24.9 1.0 O A:THR112 4.8 30.6 1.0 CA A:ILE116 4.9 24.1 1.0 CA A:CYS106 4.9 31.2 1.0 O A:VAL113 4.9 26.1 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Pyrococcus Furiosus Dna Primase


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 Pyrococcus Furiosus Dna Primase within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn348 b:29.8 occ:1.00 NE2 B:HIS108 2.1 36.8 1.0 SG B:CYS114 2.2 28.1 1.0 SG B:CYS106 2.3 29.9 1.0 SG B:CYS117 2.4 27.4 1.0 CD2 B:HIS108 3.0 35.8 1.0 CB B:CYS117 3.1 24.9 1.0 CE1 B:HIS108 3.2 36.8 1.0 CB B:CYS114 3.2 27.9 1.0 CB B:CYS106 3.4 32.5 1.0 N B:CYS117 3.4 26.0 1.0 N B:CYS114 3.5 30.2 1.0 CA B:CYS114 3.8 29.2 1.0 CA B:CYS117 3.9 25.5 1.0 CG B:HIS108 4.1 36.4 1.0 ND1 B:HIS108 4.2 35.9 1.0 O B:CYS114 4.2 29.6 1.0 C B:CYS114 4.3 29.3 1.0 C B:VAL113 4.3 31.1 1.0 O B:HOH446 4.4 29.3 1.0 CD B:LYS104 4.4 31.1 1.0 CB B:ILE116 4.4 28.5 1.0 C B:ILE116 4.5 28.0 1.0 NZ B:LYS104 4.7 29.2 1.0 CA B:VAL113 4.7 30.5 1.0 N B:ILE116 4.8 28.2 1.0 CA B:ILE116 4.8 28.2 1.0 CA B:CYS106 4.8 34.3 1.0 O B:THR112 4.8 31.9 1.0 CG2 B:ILE116 5.0 29.8 1.0

M.A.Augustin, R.Huber, J.T.Kaiser. Crystal Structure of A Dna-Dependent Rna Polymerase (Dna Primase). Nat.Struct.Biol. V. 8 57 2001.
ISSN: ISSN 1072-8368
PubMed: 11135672
DOI: 10.1038/83060