Magnesium in PDB 5aga: Crystal Structure of the Helicase Domain of Human Dna Polymerase Theta in Complex with Amppnp

Enzymatic activity of Crystal Structure of the Helicase Domain of Human Dna Polymerase Theta in Complex with Amppnp

All present enzymatic activity of Crystal Structure of the Helicase Domain of Human Dna Polymerase Theta in Complex with Amppnp:
2.7.7.7;

Protein crystallography data

The structure of Crystal Structure of the Helicase Domain of Human Dna Polymerase Theta in Complex with Amppnp, PDB code: 5aga was solved by J.A.Newman, C.D.O.Cooper, H.Aitkenhead, D.M.Pinkas, K.Kupinska, N.Burgess-Brown, F.Von Delft, C.H.Arrowsmith, A.Edwards, C.Bountra, O.Gileadi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	46.632 / 2.90
*Space group*	I 2 2 2
*Cell size a, b, c (Å), α, β, γ (°)*	116.170, 132.710, 156.430, 90.00, 90.00, 90.00
*R / R_free (%)*	21.74 / 26.44

Other elements in 5aga:

The structure of Crystal Structure of the Helicase Domain of Human Dna Polymerase Theta in Complex with Amppnp also contains other interesting chemical elements:

Potassium

(K)

1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the Helicase Domain of Human Dna Polymerase Theta in Complex with Amppnp (pdb code 5aga). 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 Helicase Domain of Human Dna Polymerase Theta in Complex with Amppnp, PDB code: 5aga:

Magnesium binding site 1 out of 1 in 5aga

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Magnesium Binding Sites List in 5aga

Magnesium binding site 1 out of 1 in the Crystal Structure of the Helicase Domain of Human Dna Polymerase Theta in Complex with Amppnp

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 Helicase Domain of Human Dna Polymerase Theta in Complex with Amppnp within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Mg1895 b:0.1 occ:1.00	O2G	A:ANP1892	2.9	0.3	1.0
	N3B	A:ANP1892	3.4	0.3	1.0
	OD2	A:ASP216	3.4	0.9	1.0
	OD1	A:ASP216	3.4	0.3	1.0
	CE	A:LYS121	3.5	94.5	1.0
	PG	A:ANP1892	3.7	0.7	1.0
	CG	A:ASP216	3.8	0.8	1.0
	CB	A:LYS121	3.9	85.8	1.0
	O2B	A:ANP1892	3.9	0.7	1.0
	PB	A:ANP1892	4.1	0.7	1.0
	O1B	A:ANP1892	4.1	0.3	1.0
	O1G	A:ANP1892	4.2	0.3	1.0
	NZ	A:LYS121	4.3	96.1	1.0
	CE	A:MET264	4.4	0.6	1.0
	SD	A:MET264	4.4	0.1	1.0
	CD	A:LYS121	4.4	81.6	1.0
	OE1	A:GLU217	4.5	0.0	1.0
	CG2	A:THR122	4.7	92.3	1.0
	CG	A:LYS121	4.7	89.9	1.0
	N	A:THR122	5.0	0.9	1.0

Reference:

J.A.Newman, C.D.O.Cooper, H.Aitkenhead, D.M.Pinkas, K.Kupinska, N.Burgess-Brown, F.Von Delft, C.H.Arrowsmith, A.Edwards, C.Bountra, O.Gileadi. Crystal Structure of the Helicase Domain of Human Dna Polymerase Theta in Complex with Amppnp To Be Published.

Page generated: Tue Aug 12 05:09:48 2025

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