Magnesium in PDB 2qxf: 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;

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 / Rfree (%)	19.9 / 22.4

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

Sodium

(Na)

1 atom

The binding sites of Magnesium 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 Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Product Bound Structure of Exonuclease I at 1.5 Angstrom Resolution, PDB code: 2qxf:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Product Bound Structure of Exonuclease I at 1.5 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg 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:Mg2000 b:23.7 occ:1.00 O A:HOH3173 1.9 22.8 1.0 O A:HOH3251 2.0 25.7 1.0 O A:HOH3255 2.2 24.8 1.0 OD2 A:ASP186 2.2 14.3 1.0 O A:HOH3111 2.2 25.1 1.0 OE2 A:GLU17 2.3 15.6 1.0 NA A:NA2002 3.1 20.1 1.0 CG A:ASP186 3.2 12.9 1.0 CD A:GLU17 3.2 15.0 1.0 OE1 A:GLU17 3.5 15.3 1.0 OD1 A:ASP186 3.6 15.2 1.0 O A:HOH3078 3.9 15.0 1.0 O A:HOH3256 3.9 35.8 1.0 O A:HOH3290 4.2 25.0 1.0 O A:HOH3105 4.2 25.5 1.0 O A:HOH3125 4.4 21.0 1.0 CB A:ASP186 4.5 11.7 1.0 CG A:GLU17 4.6 12.7 1.0 OD2 A:ASP15 4.6 13.6 1.0 O A:HOH3104 4.6 26.6 1.0 O A:HOH3107 4.7 17.6 1.0 O2P A:TMP3000 4.9 20.2 1.0

Magnesium binding site 2 out of 2 in the Product Bound Structure of Exonuclease I at 1.5 Angstrom Resolution


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Product Bound Structure of Exonuclease I at 1.5 Angstrom Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2001 b:11.4 occ:1.00 O1P A:TMP3000 2.0 16.9 1.0 O A:HOH3080 2.1 12.7 1.0 O A:HOH3097 2.1 12.4 1.0 OD1 A:ASP15 2.1 12.2 1.0 O A:HOH3079 2.1 14.1 1.0 O A:HOH3078 2.2 15.0 1.0 CG A:ASP15 3.1 11.7 1.0 OD2 A:ASP15 3.4 13.6 1.0 P A:TMP3000 3.4 20.2 1.0 O A:TYR16 3.9 10.9 1.0 C5' A:TMP3000 4.0 20.9 1.0 O A:HOH3103 4.0 24.2 1.0 OD1 A:ASP108 4.0 10.5 1.0 O5' A:TMP3000 4.0 19.9 1.0 O A:HOH3010 4.1 12.3 1.0 O A:HOH3127 4.1 24.9 1.0 O2P A:TMP3000 4.2 20.2 1.0 O A:HOH3064 4.2 29.4 1.0 OD2 A:ASP108 4.2 10.8 1.0 O A:HOH3173 4.2 22.8 1.0 O A:HOH3026 4.2 13.3 1.0 O A:TYR102 4.3 10.1 1.0 O3P A:TMP3000 4.4 21.4 1.0 CB A:ASP15 4.4 11.1 1.0 CG A:ASP108 4.5 10.4 1.0 N A:TYR16 4.8 10.5 1.0 CA A:ASP15 5.0 10.7 1.0

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