Magnesium in PDB 4mfa: Structure of Human Dna Polymerase Beta Complexed with Nicked Dna Containing A Mismatched Template O6MG and Incoming Ttp

Enzymatic activity of Structure of Human Dna Polymerase Beta Complexed with Nicked Dna Containing A Mismatched Template O6MG and Incoming Ttp

All present enzymatic activity of Structure of Human Dna Polymerase Beta Complexed with Nicked Dna Containing A Mismatched Template O6MG and Incoming Ttp:
2.7.7.7;

Protein crystallography data

The structure of Structure of Human Dna Polymerase Beta Complexed with Nicked Dna Containing A Mismatched Template O6MG and Incoming Ttp, PDB code: 4mfa was solved by M.C.Koag, K.Min, A.F.Monzingo, S.Lee, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	30.00 / 2.27
*Space group*	P 1 2₁ 1
*Cell size a, b, c (Å), α, β, γ (°)*	54.971, 79.662, 55.001, 90.00, 106.68, 90.00
*R / R_free (%)*	21.2 / 28.3

Other elements in 4mfa:

The structure of Structure of Human Dna Polymerase Beta Complexed with Nicked Dna Containing A Mismatched Template O6MG and Incoming Ttp also contains other interesting chemical elements:

Sodium

(Na)

2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Human Dna Polymerase Beta Complexed with Nicked Dna Containing A Mismatched Template O6MG and Incoming Ttp (pdb code 4mfa). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of Human Dna Polymerase Beta Complexed with Nicked Dna Containing A Mismatched Template O6MG and Incoming Ttp, PDB code: 4mfa:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 4mfa

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Magnesium Binding Sites List in 4mfa

Magnesium binding site 1 out of 2 in the Structure of Human Dna Polymerase Beta Complexed with Nicked Dna Containing A Mismatched Template O6MG and Incoming Ttp

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Human Dna Polymerase Beta Complexed with Nicked Dna Containing A Mismatched Template O6MG and Incoming Ttp within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Mg402 b:41.1 occ:1.00	OG	A:SER171	2.3	24.0	1.0
	O	A:HOH513	2.4	21.6	1.0
	CB	A:SER171	3.5	22.7	1.0
	O	A:HOH521	3.6	34.7	1.0
	N	A:SER171	4.1	20.9	1.0
	CA	A:SER171	4.3	22.7	1.0
	OD1	A:ASP170	4.8	21.4	1.0
	C	A:SER171	5.0	22.4	1.0

Magnesium binding site 2 out of 2 in 4mfa

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Magnesium Binding Sites List in 4mfa

Magnesium binding site 2 out of 2 in the Structure of Human Dna Polymerase Beta Complexed with Nicked Dna Containing A Mismatched Template O6MG and Incoming Ttp

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Human Dna Polymerase Beta Complexed with Nicked Dna Containing A Mismatched Template O6MG and Incoming Ttp within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
P:Mg101 b:42.9 occ:1.00	OP1	P:DT11	1.7	74.7	1.0
	OD2	A:ASP190	2.1	27.3	1.0
	P	P:DT11	3.0	71.9	1.0
	CG	A:ASP190	3.3	27.5	1.0
	OP2	P:DT11	3.6	76.6	1.0
	OD2	A:ASP256	3.6	22.3	1.0
	OD1	A:ASP190	3.7	30.2	1.0
	O3'	P:DA10	4.0	64.8	1.0
	OD2	A:ASP192	4.0	35.9	1.0
	C5'	P:DA10	4.1	43.4	1.0
	O5'	P:DT11	4.2	76.3	1.0
	CG	A:ASP256	4.4	19.4	1.0
	C4'	P:DA10	4.5	48.6	1.0
	CB	A:ASP190	4.5	22.1	1.0
	CG	A:ASP192	4.6	30.7	1.0
	OP1	P:DA10	4.6	32.7	1.0
	C3'	P:DA10	4.7	54.6	1.0
	NH2	A:ARG258	4.8	26.8	1.0
	C5'	P:DT11	4.8	65.9	1.0
	O	A:HOH514	4.9	22.9	1.0
	CB	A:ASP192	4.9	26.0	1.0

Reference:

M.C.Koag, K.Min, A.F.Monzingo, S.Lee. Structures of Human Dna Polymerase Beta Inserting Bases Opposite Templating O6MG To Be Published.

Page generated: Mon Aug 19 20:22:09 2024

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