Zinc in PDB 2qnc: Crystal Structure of T4 Endonuclease VII N62D Mutant in Complex with A Dna Holliday Junction

All present enzymatic activity of Crystal Structure of T4 Endonuclease VII N62D Mutant in Complex with A Dna Holliday Junction:
3.1.22.4;

The structure of Crystal Structure of T4 Endonuclease VII N62D Mutant in Complex with A Dna Holliday Junction, PDB code: 2qnc was solved by C.Biertumpfel, W.Yang, D.Suck, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	42.27 / 3.10
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	99.197, 99.197, 186.884, 90.00, 90.00, 90.00
R / Rfree (%)	25.8 / 27.8

The structure of Crystal Structure of T4 Endonuclease VII N62D Mutant in Complex with A Dna Holliday Junction also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

The binding sites of Zinc atom in the Crystal Structure of T4 Endonuclease VII N62D Mutant in Complex with A Dna Holliday Junction (pdb code 2qnc). 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 T4 Endonuclease VII N62D Mutant in Complex with A Dna Holliday Junction, PDB code: 2qnc:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of T4 Endonuclease VII N62D Mutant in Complex with A Dna Holliday Junction


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 T4 Endonuclease VII N62D Mutant in Complex with A Dna Holliday Junction within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn158 b:85.6 occ:1.00 SG A:CYS23 1.9 77.7 1.0 SG A:CYS26 1.9 78.2 1.0 SG A:CYS58 2.2 64.3 1.0 SG A:CYS61 2.3 66.5 1.0 CB A:CYS23 2.8 80.8 1.0 CB A:CYS26 2.9 80.7 1.0 CB A:CYS61 3.2 63.8 1.0 N A:CYS26 3.3 79.7 1.0 CB A:CYS58 3.5 63.8 1.0 CA A:CYS26 3.7 81.4 1.0 N A:CYS58 4.1 64.9 1.0 N A:GLN27 4.2 86.2 1.0 CA A:CYS23 4.3 81.7 1.0 N A:CYS61 4.4 61.7 1.0 CA A:CYS58 4.4 64.6 1.0 C A:CYS26 4.4 83.7 1.0 CA A:CYS61 4.4 62.4 1.0 C A:ILE25 4.5 78.6 1.0 C A:CYS23 4.7 81.1 1.0 O A:CYS58 4.7 63.4 1.0 N A:ILE25 4.7 77.2 1.0 O A:CYS23 4.7 81.2 1.0 CB A:ILE25 4.8 75.6 1.0 CA A:ILE25 4.9 77.3 1.0 C A:CYS58 4.9 63.9 1.0 N A:ARG28 4.9 89.4 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of T4 Endonuclease VII N62D Mutant in Complex with A Dna Holliday Junction


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 T4 Endonuclease VII N62D Mutant in Complex with A Dna Holliday Junction within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn158 b:91.8 occ:1.00 SG B:CYS58 2.2 76.5 1.0 SG B:CYS26 2.2 95.8 1.0 SG B:CYS61 2.4 70.7 1.0 SG B:CYS23 2.4 91.6 1.0 CB B:CYS58 3.0 77.3 1.0 CB B:CYS61 3.0 72.3 1.0 CB B:CYS23 3.1 93.7 1.0 N B:CYS58 3.7 79.5 1.0 CB B:CYS26 3.8 95.5 1.0 N B:CYS61 3.9 72.0 1.0 CA B:CYS58 3.9 78.2 1.0 CA B:CYS61 4.0 71.9 1.0 N B:CYS26 4.1 94.9 1.0 O B:CYS58 4.3 78.4 1.0 NE B:ARG28 4.4 0.8 1.0 C B:CYS58 4.6 77.5 1.0 CA B:CYS23 4.6 94.6 1.0 CA B:CYS26 4.6 95.6 1.0 CG B:ARG28 4.7 99.2 1.0 C B:LEU57 4.9 81.0 1.0 CB B:ILE25 5.0 96.6 1.0 CD2 A:LEU77 5.0 88.0 1.0

C.Biertumpfel, W.Yang, D.Suck. Crystal Structure of T4 Endonuclease VII Resolving A Holliday Junction. Nature V. 449 616 2007.
ISSN: ISSN 0028-0836
PubMed: 17873859
DOI: 10.1038/NATURE06152