Sodium in PDB 7kt7: Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN)

Enzymatic activity of Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN)

All present enzymatic activity of Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN):
2.7.7.7;

Protein crystallography data

The structure of Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN), PDB code: 7kt7 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)*	34.95 / 1.76
*Space group*	P 2₁ 2₁ 2₁
*Cell size a, b, c (Å), α, β, γ (°)*	59.908, 68.531, 110.589, 90, 90, 90
*R / R_free (%)*	16.1 / 18.7

Other elements in 7kt7:

The structure of Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN) also contains other interesting chemical elements:

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

Sodium Binding Sites:

The binding sites of Sodium atom in the Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN) (pdb code 7kt7). 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 Reaction State Ternary Complex, 50 Mm MG2+ (60MIN), PDB code: 7kt7:

Sodium binding site 1 out of 1 in 7kt7

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Sodium Binding Sites List in 7kt7

Sodium binding site 1 out of 1 in the Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN)

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 Reaction State Ternary Complex, 50 Mm MG2+ (60MIN) within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na504 b:19.0 occ:1.00	O	A:VAL246	2.3	18.8	1.0
	O	A:ILE243	2.4	19.3	1.0
	O	A:THR241	2.4	23.4	1.0
	O	P:HOH216	2.4	22.1	1.0
	O	A:HOH826	2.4	26.3	1.0
	OP1	P:DT3	2.8	17.9	1.0
	C	A:ILE243	3.4	21.6	1.0
	C	A:VAL246	3.4	19.1	1.0
	C	A:THR241	3.4	24.5	1.0
	O	P:HOH215	3.6	33.1	1.0
	N	A:VAL246	3.7	17.1	1.0
	P	P:DT3	3.8	17.5	1.0
	OP2	P:DT3	3.9	16.4	1.0
	N	A:ILE243	4.0	21.9	1.0
	CA	A:VAL246	4.1	18.7	1.0
	O	A:HOH762	4.1	48.8	1.0
	C	A:GLN242	4.2	25.1	0.4
	N	A:PHE244	4.2	20.5	1.0
	CA	A:THR241	4.2	21.0	1.0
	C	A:GLN242	4.2	25.1	0.6
	N	A:GLY245	4.2	18.8	1.0
	CA	A:PHE244	4.2	18.4	1.0
	CA	A:ILE243	4.3	18.8	1.0
	N	A:GLN242	4.3	26.5	0.6
	N	A:GLN242	4.3	26.5	0.4
	CA	A:GLN242	4.4	27.9	0.6
	CB	A:VAL246	4.4	18.1	1.0
	CA	A:GLN242	4.5	27.5	0.4
	N	A:GLY247	4.5	21.5	1.0
	O	A:HOH841	4.5	53.8	1.0
	O	A:GLN242	4.5	25.1	0.4
	C	A:PHE244	4.6	19.1	1.0
	O	A:GLN242	4.7	25.4	0.6
	O	A:PHE240	4.7	19.3	1.0
	O3'	P:DG2	4.8	17.7	1.0
	CA	A:GLY247	4.8	20.8	1.0
	C	A:GLY245	4.8	19.6	1.0
	CB	A:THR241	4.9	20.0	1.0

Reference:

J.A.Jamsen, A.Sassa, D.D.Shock, W.A.Beard, S.H.Wilson. Dna Polymerase Mu, 8-Oxodgtp:at Reaction State Ternary Complex, 50 Mm MG2+ (60MIN) To Be Published.

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

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