Atomistry » Magnesium » PDB 2qrn-2r1y » 2qxf
Atomistry »
  Magnesium »
    PDB 2qrn-2r1y »
      2qxf »

Magnesium 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 / Rfree (%) 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:

Sodium (Na) 1 atom

Magnesium Binding Sites:

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 2qxf

Go back to Magnesium Binding Sites List in 2qxf
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 2qxf

Go back to Magnesium Binding Sites List in 2qxf
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

Reference:

R.D.Busam, R.D.Busam. N/A N/A.
ISSN: ISSN 0907-4449
PubMed: 18219121
DOI: 10.1107/S090744490706012X
Page generated: Mon Dec 14 07:37:36 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy