Zinc in PDB 3plw: Ref Protein From P1 Bacteriophage

The structure of Ref Protein From P1 Bacteriophage, PDB code: 3plw was solved by J.L.Keck, D.Lu, M.M.Cox, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.00 / 1.40
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	71.733, 71.733, 54.236, 90.00, 90.00, 120.00
R / Rfree (%)	16.3 / 17.2

The binding sites of Zinc atom in the Ref Protein From P1 Bacteriophage (pdb code 3plw). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Ref Protein From P1 Bacteriophage, PDB code: 3plw:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Ref Protein From P1 Bacteriophage


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Ref Protein From P1 Bacteriophage within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn187 b:11.7 occ:1.00 O4 A:SO4189 1.9 15.8 1.0 NE2 A:HIS153 2.0 12.2 1.0 NE2 A:HIS134 2.1 10.5 1.0 ND1 A:HIS112 2.1 11.5 1.0 CD2 A:HIS134 2.9 11.6 1.0 CD2 A:HIS153 2.9 11.3 1.0 CE1 A:HIS112 3.0 10.9 1.0 S A:SO4189 3.1 20.8 1.0 CE1 A:HIS153 3.1 13.6 1.0 CE1 A:HIS134 3.1 13.5 1.0 CG A:HIS112 3.1 10.2 1.0 O1 A:SO4189 3.3 22.7 1.0 O A:HOH270 3.3 22.8 1.0 CB A:HIS112 3.5 10.0 1.0 O2 A:SO4189 3.6 22.6 1.0 CA A:HIS112 3.6 10.1 1.0 N A:HIS113 4.0 10.0 1.0 CG A:HIS153 4.1 11.1 1.0 CG A:HIS134 4.1 10.3 1.0 ND1 A:HIS153 4.1 14.3 1.0 NE2 A:HIS112 4.1 11.7 1.0 ND1 A:HIS134 4.2 14.4 1.0 CD2 A:HIS112 4.2 11.1 1.0 O3 A:SO4189 4.2 21.8 1.0 C A:HIS112 4.2 9.9 1.0 O A:HIS113 4.5 11.1 1.0 O A:HOH219 4.5 37.1 1.0 CG1 A:VAL152 4.6 9.0 1.0 N A:HIS112 4.9 10.1 1.0 O A:LEU111 4.9 12.1 1.0

Zinc binding site 2 out of 2 in the Ref Protein From P1 Bacteriophage


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Ref Protein From P1 Bacteriophage within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn188 b:7.9 occ:1.00 ND1 A:HIS133 2.1 6.4 1.0 SG A:CYS99 2.3 8.2 1.0 SG A:CYS96 2.4 7.6 1.0 SG A:CYS130 2.4 8.7 1.0 CE1 A:HIS133 3.0 7.8 1.0 CG A:HIS133 3.2 6.7 1.0 CB A:CYS96 3.3 7.7 1.0 CB A:CYS99 3.3 8.4 1.0 CB A:CYS130 3.4 7.7 1.0 CB A:HIS133 3.6 6.8 1.0 N A:CYS99 3.6 7.8 1.0 N A:CYS130 3.9 7.9 1.0 CA A:CYS99 4.0 8.0 1.0 NE2 A:HIS133 4.2 9.2 1.0 CA A:CYS130 4.2 7.7 1.0 CD2 A:HIS133 4.3 9.2 1.0 CD1 A:LEU149 4.4 8.7 1.0 CB A:SER106 4.5 10.1 0.5 OG A:SER106 4.5 9.1 0.5 CB A:SER106 4.5 10.6 0.5 N A:HIS133 4.6 7.8 1.0 OG A:SER106 4.7 12.5 0.5 CB A:ALA98 4.7 8.4 1.0 C A:ALA98 4.7 8.3 1.0 CA A:CYS96 4.7 7.7 1.0 CA A:HIS133 4.7 7.4 1.0 C A:CYS130 4.9 7.6 1.0

M.C.Gruenig, D.Lu, S.J.Won, C.L.Dulberger, A.J.Manlick, J.L.Keck, M.M.Cox. Creating Directed Double-Strand Breaks with the Ref Protein: A Novel Reca-Dependent Nuclease From Bacteriophage P1. J.Biol.Chem. V. 286 8240 2011.
ISSN: ISSN 0021-9258
PubMed: 21193392
DOI: 10.1074/JBC.M110.205088