Sodium in PDB 2qxf: Product Bound Structure of Exonuclease I at 1.5 Angstrom Resolution

Enzymatic activity of Product Bound Structure of Exonuclease I at 1.5 Angstrom Resolution

All present enzymatic activity of Product Bound Structure of Exonuclease I at 1.5 Angstrom Resolution:
3.1.11.1;

Protein crystallography data

The structure of Product Bound Structure of Exonuclease I at 1.5 Angstrom Resolution, PDB code: 2qxf was solved by R.D.Busam, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	26.32 / 1.50
*Space group*	P 2₁ 2₁ 2₁
*Cell size a, b, c (Å), α, β, γ (°)*	52.630, 91.849, 102.752, 90.00, 90.00, 90.00
*R / R_free (%)*	19.9 / 22.4

Other elements in 2qxf:

The structure of Product Bound Structure of Exonuclease I at 1.5 Angstrom Resolution also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Product Bound Structure of Exonuclease I at 1.5 Angstrom Resolution (pdb code 2qxf). 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 Product Bound Structure of Exonuclease I at 1.5 Angstrom Resolution, PDB code: 2qxf:

Sodium binding site 1 out of 1 in 2qxf

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Sodium Binding Sites List in 2qxf

Sodium binding site 1 out of 1 in the Product Bound Structure of Exonuclease I at 1.5 Angstrom Resolution

Mono view

Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Product Bound Structure of Exonuclease I at 1.5 Angstrom Resolution within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na2002 b:20.1 occ:1.00	O	A:HOH3109	2.3	21.1	1.0
	O	A:HOH3125	2.3	21.0	1.0
	O	A:HOH3107	2.3	17.6	1.0
	OD2	A:ASP186	2.4	14.3	1.0
	OE2	A:GLU17	2.4	15.6	1.0
	O	A:HOH3111	2.6	25.1	1.0
	MG	A:MG2000	3.1	23.7	1.0
	CG	A:ASP186	3.4	12.9	1.0
	CD	A:GLU17	3.5	15.0	1.0
	CG	A:GLU17	3.8	12.7	1.0
	O	A:HOH3108	3.8	17.2	1.0
	O	A:ALA183	3.9	14.1	1.0
	O	A:HOH3110	3.9	32.4	1.0
	CB	A:ASP186	4.0	11.7	1.0
	OD2	A:ASP15	4.0	13.6	1.0
	O	A:HOH3105	4.1	25.5	1.0
	O	A:HOH3106	4.2	16.3	1.0
	OD1	A:ASP186	4.3	15.2	1.0
	O	A:HOH3173	4.5	22.8	1.0
	OE1	A:GLN30	4.5	16.9	1.0
	O	A:HOH3251	4.5	25.7	1.0
	OE1	A:GLU17	4.6	15.3	1.0
	N	A:ASP186	4.6	11.7	1.0
	C	A:ALA183	4.7	14.6	1.0
	O	A:ASP182	4.7	17.5	1.0
	O	A:HOH3255	4.8	24.8	1.0
	CA	A:ASP186	4.9	11.6	1.0
	O	A:HOH3078	5.0	15.0	1.0

Reference:

R.D.Busam, R.D.Busam. N/A N/A.
ISSN: ISSN 0907-4449
PubMed: 18219121
DOI: 10.1107/S090744490706012X

Page generated: Mon Oct 7 04:06:08 2024

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