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Zinc in PDB 2qnf: Crystal Structure of T4 Endonuclease VII H43N Mutant in Complex with Heteroduplex Dna Containing Base Mismatches

Enzymatic activity of Crystal Structure of T4 Endonuclease VII H43N Mutant in Complex with Heteroduplex Dna Containing Base Mismatches

All present enzymatic activity of Crystal Structure of T4 Endonuclease VII H43N Mutant in Complex with Heteroduplex Dna Containing Base Mismatches:
3.1.22.4;

Protein crystallography data

The structure of Crystal Structure of T4 Endonuclease VII H43N Mutant in Complex with Heteroduplex Dna Containing Base Mismatches, PDB code: 2qnf 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) 37.84 / 3.00
Space group P 31
Cell size a, b, c (Å), α, β, γ (°) 64.997, 64.997, 153.321, 90.00, 90.00, 120.00
R / Rfree (%) 24.6 / 28

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of T4 Endonuclease VII H43N Mutant in Complex with Heteroduplex Dna Containing Base Mismatches (pdb code 2qnf). 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 H43N Mutant in Complex with Heteroduplex Dna Containing Base Mismatches, PDB code: 2qnf:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 2qnf

Go back to Zinc Binding Sites List in 2qnf
Zinc binding site 1 out of 2 in the Crystal Structure of T4 Endonuclease VII H43N Mutant in Complex with Heteroduplex Dna Containing Base Mismatches


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 H43N Mutant in Complex with Heteroduplex Dna Containing Base Mismatches within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn158

b:1.0
occ:1.00
SG A:CYS58 2.1 0.6 1.0
SG A:CYS23 2.2 0.1 1.0
SG A:CYS26 2.3 0.3 1.0
SG A:CYS61 2.6 0.6 1.0
CB A:CYS23 2.9 0.5 1.0
CB A:CYS61 3.0 0.9 1.0
CB A:CYS58 3.1 0.5 1.0
CB A:CYS26 3.3 0.1 1.0
N A:CYS26 3.7 0.4 1.0
N A:CYS58 3.8 0.6 1.0
CA A:CYS58 4.0 0.6 1.0
CA A:CYS26 4.1 0.2 1.0
N A:CYS61 4.1 0.8 1.0
CA A:CYS61 4.2 0.8 1.0
CA A:CYS23 4.3 0.7 1.0
O A:CYS58 4.6 0.5 1.0
C A:CYS58 4.7 0.4 1.0
C A:CYS26 4.8 0.2 1.0
N A:GLN27 4.8 0.5 1.0
C A:CYS23 4.8 0.1 1.0
CB A:ILE25 4.9 0.7 1.0
C A:ILE25 4.9 0.1 1.0
C A:LEU57 5.0 1.0 1.0
N A:ILE25 5.0 0.3 1.0

Zinc binding site 2 out of 2 in 2qnf

Go back to Zinc Binding Sites List in 2qnf
Zinc binding site 2 out of 2 in the Crystal Structure of T4 Endonuclease VII H43N Mutant in Complex with Heteroduplex Dna Containing Base Mismatches


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 H43N Mutant in Complex with Heteroduplex Dna Containing Base Mismatches within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn158

b:0.7
occ:1.00
SG B:CYS23 2.1 0.5 1.0
SG B:CYS58 2.3 0.9 1.0
SG B:CYS26 2.3 0.1 1.0
SG B:CYS61 2.4 0.1 1.0
CB B:CYS23 2.7 0.6 1.0
CB B:CYS61 3.0 0.5 1.0
N B:CYS26 3.5 0.6 1.0
CB B:CYS26 3.5 0.9 1.0
CB B:CYS58 3.6 0.6 1.0
N B:CYS58 3.7 0.3 1.0
CA B:CYS26 4.0 0.9 1.0
CA B:CYS23 4.2 0.4 1.0
CA B:CYS58 4.2 0.5 1.0
CA B:CYS61 4.2 0.8 1.0
N B:CYS61 4.3 0.7 1.0
CB B:ILE25 4.4 0.7 1.0
C B:ILE25 4.6 0.9 1.0
C B:CYS23 4.6 0.3 1.0
N B:ILE25 4.6 0.6 1.0
O B:CYS58 4.7 0.5 1.0
N B:GLN27 4.7 0.4 1.0
CA B:ILE25 4.8 0.7 1.0
C B:CYS26 4.8 0.5 1.0
O B:CYS23 4.8 0.6 1.0
C B:LEU57 4.8 0.3 1.0
C B:CYS58 4.8 0.4 1.0
CB B:LEU57 4.9 0.6 1.0

Reference:

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
Page generated: Wed Dec 16 03:50:43 2020

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