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Sodium in PDB 7kt6: Dna Polymerase Mu, 8-Oxodgtp:at Product State Ternary Complex, 10 Mm MN2+ (960MIN)

Enzymatic activity of Dna Polymerase Mu, 8-Oxodgtp:at Product State Ternary Complex, 10 Mm MN2+ (960MIN)

All present enzymatic activity of Dna Polymerase Mu, 8-Oxodgtp:at Product State Ternary Complex, 10 Mm MN2+ (960MIN):
2.7.7.7;

Protein crystallography data

The structure of Dna Polymerase Mu, 8-Oxodgtp:at Product State Ternary Complex, 10 Mm MN2+ (960MIN), PDB code: 7kt6 was solved by J.A.Jamsen, S.H.Wilson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 21.04 / 1.87
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 60.081, 68.692, 110.49, 90, 90, 90
R / Rfree (%) 16.5 / 19.3

Other elements in 7kt6:

The structure of Dna Polymerase Mu, 8-Oxodgtp:at Product State Ternary Complex, 10 Mm MN2+ (960MIN) also contains other interesting chemical elements:

Manganese (Mn) 6 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Dna Polymerase Mu, 8-Oxodgtp:at Product State Ternary Complex, 10 Mm MN2+ (960MIN) (pdb code 7kt6). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Dna Polymerase Mu, 8-Oxodgtp:at Product State Ternary Complex, 10 Mm MN2+ (960MIN), PDB code: 7kt6:

Sodium binding site 1 out of 1 in 7kt6

Go back to Sodium Binding Sites List in 7kt6
Sodium binding site 1 out of 1 in the Dna Polymerase Mu, 8-Oxodgtp:at Product State Ternary Complex, 10 Mm MN2+ (960MIN)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Dna Polymerase Mu, 8-Oxodgtp:at Product State Ternary Complex, 10 Mm MN2+ (960MIN) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na506

b:27.8
occ:1.00
 O A:VAL246 2.3 28.0 1.0
O A:HOH801 2.3 28.1 1.0
O A:ILE243 2.3 25.8 1.0
O A:THR241 2.4 27.1 1.0
O P:HOH111 2.5 30.1 1.0
OP1 P:DT3 2.7 27.7 1.0
C A:ILE243 3.4 25.9 1.0
C A:VAL246 3.4 28.1 1.0
C A:THR241 3.4 28.2 1.0
O P:HOH113 3.6 35.7 1.0
N A:VAL246 3.7 27.3 1.0
P P:DT3 3.7 26.3 1.0
OP2 P:DT3 3.8 25.4 1.0
N A:ILE243 4.0 26.6 1.0
CA A:VAL246 4.0 28.5 1.0
N A:PHE244 4.1 26.7 1.0
C A:GLN242 4.1 28.7 1.0
N A:GLY245 4.2 25.2 1.0
CA A:PHE244 4.2 27.0 1.0
CA A:THR241 4.2 28.2 1.0
CA A:ILE243 4.3 25.6 1.0
N A:GLN242 4.3 30.1 1.0
CB A:VAL246 4.4 29.0 1.0
CA A:GLN242 4.4 31.3 1.0
O A:HOH816 4.4 44.3 1.0
N A:GLY247 4.5 27.8 1.0
C A:PHE244 4.6 26.2 1.0
O A:GLN242 4.6 30.2 1.0
O3' P:DG2 4.7 26.1 1.0
O A:PHE240 4.8 27.5 1.0
C A:GLY245 4.8 27.8 1.0
CA A:GLY247 4.8 27.8 1.0
O5' P:DT3 4.9 24.8 1.0
CB A:THR241 5.0 28.6 1.0

Reference:

J.A.Jamsen, A.Sassa, D.D.Shock, W.A.Beard, S.H.Wilson. Dna Polymerase Mu, 8-Oxodgtp:at Product State Ternary Complex, 10 Mm MN2+ (960MIN) To Be Published.
Page generated: Tue Oct 8 17:28:25 2024

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