Magnesium in PDB 3sz2: Crystal Structure of the Large Fragment of Dna Polymerase I From Thermus Aquaticus in An Open Binary Complex with Dg As Templating Nucleobase

Enzymatic activity of Crystal Structure of the Large Fragment of Dna Polymerase I From Thermus Aquaticus in An Open Binary Complex with Dg As Templating Nucleobase

All present enzymatic activity of Crystal Structure of the Large Fragment of Dna Polymerase I From Thermus Aquaticus in An Open Binary Complex with Dg As Templating Nucleobase:
2.7.7.7;

Protein crystallography data

The structure of Crystal Structure of the Large Fragment of Dna Polymerase I From Thermus Aquaticus in An Open Binary Complex with Dg As Templating Nucleobase, PDB code: 3sz2 was solved by K.Betz, A.Marx, K.Diederichs, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	46.94 / 2.15
*Space group*	P 3₁ 2 1
*Cell size a, b, c (Å), α, β, γ (°)*	108.398, 108.398, 89.752, 90.00, 90.00, 120.00
*R / R_free (%)*	19 / 23.7

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the Large Fragment of Dna Polymerase I From Thermus Aquaticus in An Open Binary Complex with Dg As Templating Nucleobase (pdb code 3sz2). 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 Crystal Structure of the Large Fragment of Dna Polymerase I From Thermus Aquaticus in An Open Binary Complex with Dg As Templating Nucleobase, PDB code: 3sz2:

Magnesium binding site 1 out of 1 in 3sz2

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Magnesium Binding Sites List in 3sz2

Magnesium binding site 1 out of 1 in the Crystal Structure of the Large Fragment of Dna Polymerase I From Thermus Aquaticus in An Open Binary Complex with Dg As Templating Nucleobase

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of the Large Fragment of Dna Polymerase I From Thermus Aquaticus in An Open Binary Complex with Dg As Templating Nucleobase within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
B:Mg1 b:53.0 occ:1.00	O	B:HOH5	2.2	43.0	1.0
	O	B:HOH2	2.2	44.5	1.0
	O	B:HOH114	2.2	41.5	1.0
	O	B:HOH3	2.2	20.9	1.0
	O	D:HOH6	2.2	55.1	1.0
	O	B:HOH4	2.2	38.0	1.0
	O6	B:DG108	3.9	38.7	1.0
	O	D:HOH239	4.1	42.7	1.0
	O	B:HOH115	4.2	35.3	1.0
	O	D:HOH252	4.3	36.1	1.0
	O	A:HOH236	4.3	42.9	1.0
	O	B:HOH45	4.4	30.3	1.0
	O6	B:DG107	4.4	25.9	1.0
	N7	B:DG107	4.4	32.4	1.0
	O	B:HOH136	4.4	37.6	1.0
	N4	D:DC209	4.6	27.9	1.0
	C5	B:DC106	4.6	33.9	1.0
	C6	B:DG108	5.0	39.0	1.0

Reference:

K.Betz, D.A.Malyshev, T.Lavergne, W.Welte, K.Diederichs, T.J.Dwyer, P.Ordoukhanian, F.E.Romesberg, A.Marx. Klentaq Polymerase Replicates Unnatural Base Pairs By Inducing A Watson-Crick Geometry. Nat.Chem.Biol. V. 8 612 2012.
ISSN: ISSN 1552-4450
PubMed: 22660438
DOI: 10.1038/NCHEMBIO.966

Page generated: Mon Aug 11 03:16:46 2025

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