Sodium in PDB 7kt8: Dna Polymerase Mu, 8-Oxodgtp:at Product State Ternary Complex, 50 Mm MG2+ (180MIN)

Enzymatic activity of Dna Polymerase Mu, 8-Oxodgtp:at Product State Ternary Complex, 50 Mm MG2+ (180MIN)

All present enzymatic activity of Dna Polymerase Mu, 8-Oxodgtp:at Product State Ternary Complex, 50 Mm MG2+ (180MIN):
2.7.7.7;

Protein crystallography data

The structure of Dna Polymerase Mu, 8-Oxodgtp:at Product State Ternary Complex, 50 Mm MG2+ (180MIN), PDB code: 7kt8 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)*	41.76 / 1.70
*Space group*	P 2₁ 2₁ 2₁
*Cell size a, b, c (Å), α, β, γ (°)*	59.891, 68.503, 110.793, 90, 90, 90
*R / R_free (%)*	16.8 / 19.1

Other elements in 7kt8:

The structure of Dna Polymerase Mu, 8-Oxodgtp:at Product State Ternary Complex, 50 Mm MG2+ (180MIN) also contains other interesting chemical elements:

Chlorine	(Cl)	1 atom
Magnesium	(Mg)	2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Dna Polymerase Mu, 8-Oxodgtp:at Product State Ternary Complex, 50 Mm MG2+ (180MIN) (pdb code 7kt8). 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, 50 Mm MG2+ (180MIN), PDB code: 7kt8:

Sodium binding site 1 out of 1 in 7kt8

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Sodium Binding Sites List in 7kt8

Sodium binding site 1 out of 1 in the Dna Polymerase Mu, 8-Oxodgtp:at Product State Ternary Complex, 50 Mm MG2+ (180MIN)

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, 50 Mm MG2+ (180MIN) within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na504 b:26.6 occ:1.00	O	A:HOH785	2.3	32.6	1.0
	O	A:VAL246	2.3	24.3	1.0
	O	A:ILE243	2.4	24.8	1.0
	O	A:THR241	2.4	26.6	1.0
	O	P:HOH215	2.4	28.8	1.0
	OP1	P:DT3	2.7	22.2	1.0
	C	A:ILE243	3.4	30.1	1.0
	C	A:VAL246	3.4	27.8	1.0
	C	A:THR241	3.4	27.1	1.0
	O	P:HOH216	3.7	41.2	1.0
	N	A:VAL246	3.7	22.5	1.0
	P	P:DT3	3.7	24.5	1.0
	OP2	P:DT3	3.9	20.7	1.0
	N	A:ILE243	4.0	26.2	1.0
	CA	A:VAL246	4.0	26.6	1.0
	C	A:GLN242	4.1	30.9	1.0
	N	A:PHE244	4.1	24.2	1.0
	CA	A:THR241	4.1	26.0	1.0
	N	A:GLY245	4.2	24.1	1.0
	CA	A:PHE244	4.2	24.4	1.0
	CA	A:ILE243	4.3	25.1	1.0
	N	A:GLN242	4.4	29.3	1.0
	CB	A:VAL246	4.4	24.9	1.0
	N	A:GLY247	4.4	29.2	1.0
	CA	A:GLN242	4.5	33.5	1.0
	O	A:GLN242	4.5	27.9	1.0
	O	A:HOH798	4.5	45.0	1.0
	C	A:PHE244	4.6	27.5	1.0
	O3'	P:DG2	4.7	23.2	1.0
	O	A:PHE240	4.7	26.4	1.0
	CA	A:GLY247	4.8	26.7	1.0
	C	A:GLY245	4.8	24.4	1.0
	CB	A:THR241	4.9	32.8	1.0
	O5'	P:DT3	4.9	20.5	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, 50 Mm MG2+ (180MIN) To Be Published.

Page generated: Tue Oct 8 17:28:32 2024

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