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Potassium in PDB 7co9: Ternary Complex of Dna Polymerase Mu with 1-Nt Gapped Dna (T:Dgmpnpp) and Mg

Enzymatic activity of Ternary Complex of Dna Polymerase Mu with 1-Nt Gapped Dna (T:Dgmpnpp) and Mg

All present enzymatic activity of Ternary Complex of Dna Polymerase Mu with 1-Nt Gapped Dna (T:Dgmpnpp) and Mg:
2.7.7.7;

Protein crystallography data

The structure of Ternary Complex of Dna Polymerase Mu with 1-Nt Gapped Dna (T:Dgmpnpp) and Mg, PDB code: 7co9 was solved by M.Guo, Y.Zhao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.51 / 1.60
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 60.08, 68.54, 110.82, 90, 90, 90
R / Rfree (%) 17.1 / 19.6

Other elements in 7co9:

The structure of Ternary Complex of Dna Polymerase Mu with 1-Nt Gapped Dna (T:Dgmpnpp) and Mg also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Ternary Complex of Dna Polymerase Mu with 1-Nt Gapped Dna (T:Dgmpnpp) and Mg (pdb code 7co9). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total only one binding site of Potassium was determined in the Ternary Complex of Dna Polymerase Mu with 1-Nt Gapped Dna (T:Dgmpnpp) and Mg, PDB code: 7co9:

Potassium binding site 1 out of 1 in 7co9

Go back to Potassium Binding Sites List in 7co9
Potassium binding site 1 out of 1 in the Ternary Complex of Dna Polymerase Mu with 1-Nt Gapped Dna (T:Dgmpnpp) and Mg


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Ternary Complex of Dna Polymerase Mu with 1-Nt Gapped Dna (T:Dgmpnpp) and Mg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K504

b:30.5
occ:1.00
 O A:VAL246 2.5 20.0 1.0
O A:THR241 2.5 23.2 1.0
O P:HOH111 2.6 45.4 1.0
O A:ILE243 2.6 20.6 1.0
OP1 P:DT3 2.7 20.3 0.5
OP1 P:DT3 2.7 20.5 0.5
C A:VAL246 3.6 20.6 1.0
O3' P:DA4 3.6 40.5 0.5
C A:THR241 3.6 19.8 1.0
C A:ILE243 3.6 24.3 1.0
P P:DT3 3.8 19.6 0.5
P P:DT3 3.8 19.2 0.5
N A:VAL246 3.9 20.9 1.0
OP2 P:DT3 3.9 18.4 0.5
OP2 P:DT3 3.9 19.5 0.5
C A:GLN242 4.2 23.4 1.0
CA A:VAL246 4.2 19.7 1.0
N A:ILE243 4.3 21.6 1.0
N A:GLY245 4.3 18.1 1.0
CA A:THR241 4.3 20.0 1.0
N A:PHE244 4.4 19.8 1.0
CA A:PHE244 4.4 21.2 1.0
O A:GLN242 4.4 26.7 1.0
N A:GLN242 4.6 21.1 1.0
N A:GLY247 4.6 20.3 1.0
CA A:ILE243 4.6 19.6 1.0
OP2 P:DA4 4.6 25.6 0.5
CA A:GLN242 4.7 24.3 1.0
CB A:VAL246 4.7 20.4 1.0
C3' P:DA4 4.7 36.8 0.5
C A:PHE244 4.7 22.5 1.0
O3' P:DG2 4.8 21.0 1.0
CA A:GLY247 4.9 22.8 1.0
O5' P:DT3 4.9 19.0 0.5
O5' P:DT3 4.9 18.9 0.5
CB A:THR241 4.9 21.8 1.0
C A:GLY245 4.9 20.5 1.0

Reference:

M.Guo, Y.Wang, Y.Tang, Z.Chen, J.Hou, J.Dai, Y.Wang, L.Wang, H.Xu, B.Tian, Y.Hua, Y.Zhao. Mechanism of Genome Instability Mediated By Human Dna Polymerase Mu Misincorporation. Nat Commun V. 12 3759 2021.
ISSN: ESSN 2041-1723
PubMed: 34145298
DOI: 10.1038/S41467-021-24096-7
Page generated: Mon Aug 12 18:49:48 2024

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