Magnesium in PDB 7ksx: Dna Polymerase Mu, Dgtp:Ct Product State Ternary Complex, 10 Mm MG2+ (30MIN)

Enzymatic activity of Dna Polymerase Mu, Dgtp:Ct Product State Ternary Complex, 10 Mm MG2+ (30MIN)

All present enzymatic activity of Dna Polymerase Mu, Dgtp:Ct Product State Ternary Complex, 10 Mm MG2+ (30MIN):
2.7.7.7;

Protein crystallography data

The structure of Dna Polymerase Mu, Dgtp:Ct Product State Ternary Complex, 10 Mm MG2+ (30MIN), PDB code: 7ksx 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)*	41.83 / 1.57
*Space group*	P 2₁ 2₁ 2₁
*Cell size a, b, c (Å), α, β, γ (°)*	60.011, 68.695, 110.522, 90, 90, 90
*R / R_free (%)*	16.3 / 18.6

Other elements in 7ksx:

The structure of Dna Polymerase Mu, Dgtp:Ct Product State Ternary Complex, 10 Mm MG2+ (30MIN) also contains other interesting chemical elements:

Sodium

(Na)

2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Dna Polymerase Mu, Dgtp:Ct Product State Ternary Complex, 10 Mm MG2+ (30MIN) (pdb code 7ksx). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Dna Polymerase Mu, Dgtp:Ct Product State Ternary Complex, 10 Mm MG2+ (30MIN), PDB code: 7ksx:

Magnesium binding site 1 out of 1 in 7ksx

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Magnesium Binding Sites List in 7ksx

Magnesium binding site 1 out of 1 in the Dna Polymerase Mu, Dgtp:Ct Product State Ternary Complex, 10 Mm MG2+ (30MIN)

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Dna Polymerase Mu, Dgtp:Ct Product State Ternary Complex, 10 Mm MG2+ (30MIN) within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Mg509 b:17.3 occ:1.00	O21	A:PPV508	2.1	17.9	1.0
	OP1	P:DG5	2.1	17.9	1.0
	OD2	A:ASP332	2.1	17.8	1.0
	OD1	A:ASP330	2.1	19.7	1.0
	O	A:HOH730	2.1	20.6	1.0
	O32	A:PPV508	2.3	24.9	1.0
	CG	A:ASP330	3.1	29.0	1.0
	CG	A:ASP332	3.2	19.1	1.0
	P1	A:PPV508	3.3	21.8	1.0
	OD2	A:ASP330	3.4	33.4	1.0
	NA	A:NA506	3.5	18.6	1.0
	P	P:DG5	3.5	19.1	1.0
	OD1	A:ASP332	3.5	18.4	1.0
	OPP	A:PPV508	3.5	23.3	0.9
	P2	A:PPV508	3.6	25.1	0.6
	O	A:HOH619	3.9	24.5	0.5
	C5'	P:DG5	3.9	17.2	1.0
	O5'	P:DG5	4.0	16.4	1.0
	O11	A:PPV508	4.0	26.7	1.0
	O	A:ASP330	4.3	18.8	1.0
	O	A:HOH615	4.3	19.6	1.0
	O22	A:PPV508	4.4	25.7	0.6
	O	A:HOH658	4.4	34.9	1.0
	O	P:HOH106	4.4	27.0	1.0
	N	A:GLY320	4.4	15.7	1.0
	OP2	P:DG5	4.4	19.7	1.0
	CB	A:ASP330	4.4	21.1	1.0
	O31	A:PPV508	4.5	20.1	1.0
	C	A:ASP330	4.5	17.7	1.0
	O3'	P:DA4	4.5	18.8	1.0
	CB	A:ASP332	4.5	16.2	1.0
	CA	A:GLY319	4.6	16.8	1.0
	O12	A:PPV508	4.7	33.3	0.7
	O	A:HOH619	4.9	24.7	0.5
	CA	A:ASP330	5.0	19.4	1.0

Reference:

J.A.Jamsen, A.Sassa, D.D.Shock, W.A.Beard, S.H.Wilson. Dna Polymerase Mu, Dgtp:Ct Product State Ternary Complex, 10 Mm MG2+ (30MIN) To Be Published.

Page generated: Wed Oct 2 22:37:19 2024

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