Zinc in PDB 1v33: Crystal Structure of Dna Primase From Pyrococcus Horikoshii

The structure of Crystal Structure of Dna Primase From Pyrococcus Horikoshii, PDB code: 1v33 was solved by N.Ito, O.Nureki, M.Shirouzu, S.Yokoyama, F.Hanaoka, Rikenstructural Genomics/Proteomics Initiative (Rsgi), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.10 / 1.80
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	76.451, 76.451, 128.894, 90.00, 90.00, 120.00
R / Rfree (%)	21.9 / 24.4

The binding sites of Zinc atom in the Crystal Structure of Dna Primase From Pyrococcus Horikoshii (pdb code 1v33). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of Dna Primase From Pyrococcus Horikoshii, PDB code: 1v33:

Zinc binding site 1 out of 1 in the Crystal Structure of Dna Primase From Pyrococcus Horikoshii


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 Dna Primase From Pyrococcus Horikoshii within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1000 b:30.7 occ:1.00 NE2 A:HIS108 2.2 44.4 1.0 SG A:CYS114 2.4 28.0 1.0 SG A:CYS106 2.4 40.9 1.0 SG A:CYS117 2.4 28.5 1.0 CD2 A:HIS108 2.8 44.9 1.0 CB A:CYS117 3.2 25.1 1.0 CB A:CYS114 3.3 28.4 1.0 CE1 A:HIS108 3.4 43.7 1.0 CB A:CYS106 3.4 47.0 1.0 N A:CYS114 3.5 26.2 1.0 N A:CYS117 3.5 25.8 1.0 CA A:CYS114 3.9 26.2 1.0 CA A:CYS117 3.9 25.1 1.0 O A:CYS114 4.1 25.4 1.0 CG A:HIS108 4.1 45.7 1.0 C A:VAL113 4.1 25.7 1.0 C A:CYS114 4.2 25.3 1.0 ND1 A:HIS108 4.3 43.4 1.0 CB A:ILE116 4.4 29.4 1.0 NH1 A:ARG104 4.4 60.4 1.0 CA A:VAL113 4.5 28.4 1.0 C A:ILE116 4.6 25.9 1.0 CD A:ARG104 4.7 54.7 1.0 N A:ILE116 4.7 26.6 1.0 CA A:CYS106 4.8 48.4 1.0 CA A:ILE116 4.8 28.3 1.0 O A:VAL113 4.9 24.9 1.0

N.Ito, O.Nureki, M.Shirouzu, S.Yokoyama, F.Hanaoka. Crystal Structure of the Pyrococcus Horikoshii Dna Primase-Utp Complex: Implications For the Mechanism of Primer Synthesis. Genes Cells V. 8 913 2003.
ISSN: ISSN 1356-9597
PubMed: 14750947
DOI: 10.1111/J.1365-2443.2003.00693.X