Atomistry » Manganese » PDB 8q3z-8slm » 8s84
Atomistry »
  Manganese »
    PDB 8q3z-8slm »
      8s84 »

Manganese in PDB 8s84: Kod-H4 Dna Polymerase Mutant in A Ternary Complex with Dna/Dna and Non-Hydrolyzable Triphosphate

Enzymatic activity of Kod-H4 Dna Polymerase Mutant in A Ternary Complex with Dna/Dna and Non-Hydrolyzable Triphosphate

All present enzymatic activity of Kod-H4 Dna Polymerase Mutant in A Ternary Complex with Dna/Dna and Non-Hydrolyzable Triphosphate:
2.7.7.7;

Protein crystallography data

The structure of Kod-H4 Dna Polymerase Mutant in A Ternary Complex with Dna/Dna and Non-Hydrolyzable Triphosphate, PDB code: 8s84 was solved by C.Gutfreund, K.Betz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 38.58 / 2.35
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 110.97, 152.462, 70.125, 90, 90, 90
R / Rfree (%) 23.7 / 27.6

Other elements in 8s84:

The structure of Kod-H4 Dna Polymerase Mutant in A Ternary Complex with Dna/Dna and Non-Hydrolyzable Triphosphate also contains other interesting chemical elements:

Magnesium (Mg) 5 atoms

Manganese Binding Sites:

The binding sites of Manganese atom in the Kod-H4 Dna Polymerase Mutant in A Ternary Complex with Dna/Dna and Non-Hydrolyzable Triphosphate (pdb code 8s84). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total only one binding site of Manganese was determined in the Kod-H4 Dna Polymerase Mutant in A Ternary Complex with Dna/Dna and Non-Hydrolyzable Triphosphate, PDB code: 8s84:

Manganese binding site 1 out of 1 in 8s84

Go back to Manganese Binding Sites List in 8s84
Manganese binding site 1 out of 1 in the Kod-H4 Dna Polymerase Mutant in A Ternary Complex with Dna/Dna and Non-Hydrolyzable Triphosphate


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Kod-H4 Dna Polymerase Mutant in A Ternary Complex with Dna/Dna and Non-Hydrolyzable Triphosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn807

b:75.6
occ:1.00
 OE2 A:GLU500 2.1 60.9 1.0
OP1 T:DT4 2.1 49.3 1.0
CD A:GLU500 2.8 80.3 1.0
OE1 A:GLU500 3.0 69.0 1.0
P T:DT4 3.3 56.5 1.0
O5' T:DT4 3.7 66.1 1.0
OP2 T:DG5 3.8 66.5 1.0
O T:HOH202 3.8 60.0 1.0
OP2 T:DT4 3.9 63.5 1.0
C5' T:DT4 4.1 56.5 1.0
CG A:GLU500 4.2 83.0 1.0
O3' T:DC3 4.6 55.4 1.0
O A:GLY498 4.7 62.3 1.0
P T:DG5 4.7 58.8 1.0
O3' T:DT4 4.9 54.3 1.0
C3' T:DT4 4.9 49.6 1.0
N A:GLU500 5.0 59.2 1.0

Reference:

C.Gutfreund, K.Betz. Structural Insights Into A Dna Polymerase Reading the Xeno Nucleic Acid Hna Nucleic Acids Res. 2024.
ISSN: ESSN 1362-4962
Page generated: Wed Nov 27 20:28:02 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy