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Magnesium in PDB 4xia: Structures of D-Xylose Isomerase From Arthrobacter Strain B3728 Containing the Inhibitors Xylitol and D-Sorbitol at 2.5 Angstroms and 2.3 Angstroms Resolution, Respectively

Enzymatic activity of Structures of D-Xylose Isomerase From Arthrobacter Strain B3728 Containing the Inhibitors Xylitol and D-Sorbitol at 2.5 Angstroms and 2.3 Angstroms Resolution, Respectively

All present enzymatic activity of Structures of D-Xylose Isomerase From Arthrobacter Strain B3728 Containing the Inhibitors Xylitol and D-Sorbitol at 2.5 Angstroms and 2.3 Angstroms Resolution, Respectively:
5.3.1.5;

Protein crystallography data

The structure of Structures of D-Xylose Isomerase From Arthrobacter Strain B3728 Containing the Inhibitors Xylitol and D-Sorbitol at 2.5 Angstroms and 2.3 Angstroms Resolution, Respectively, PDB code: 4xia was solved by K.Henrick, C.A.Collyer, D.M.Blow, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 6.00 / 2.30
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 105.800, 105.800, 153.400, 90.00, 90.00, 120.00
R / Rfree (%) n/a / n/a

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structures of D-Xylose Isomerase From Arthrobacter Strain B3728 Containing the Inhibitors Xylitol and D-Sorbitol at 2.5 Angstroms and 2.3 Angstroms Resolution, Respectively (pdb code 4xia). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structures of D-Xylose Isomerase From Arthrobacter Strain B3728 Containing the Inhibitors Xylitol and D-Sorbitol at 2.5 Angstroms and 2.3 Angstroms Resolution, Respectively, PDB code: 4xia:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 4xia

Go back to Magnesium Binding Sites List in 4xia
Magnesium binding site 1 out of 2 in the Structures of D-Xylose Isomerase From Arthrobacter Strain B3728 Containing the Inhibitors Xylitol and D-Sorbitol at 2.5 Angstroms and 2.3 Angstroms Resolution, Respectively


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structures of D-Xylose Isomerase From Arthrobacter Strain B3728 Containing the Inhibitors Xylitol and D-Sorbitol at 2.5 Angstroms and 2.3 Angstroms Resolution, Respectively within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg399

b:20.5
occ:1.00
 OE1 A:GLU216 1.9 16.7 1.0
OD1 A:ASP292 2.1 18.5 1.0
OD2 A:ASP244 2.1 21.6 1.0
O4 A:SOR400 2.2 23.1 1.0
OE2 A:GLU180 2.3 17.6 1.0
O2 A:SOR400 2.3 21.5 1.0
CD A:GLU180 3.0 17.9 1.0
CD A:GLU216 3.1 15.7 1.0
OE1 A:GLU180 3.1 16.4 1.0
CG A:ASP292 3.1 18.6 1.0
CG A:ASP244 3.3 19.8 1.0
C4 A:SOR400 3.4 22.5 1.0
C2 A:SOR400 3.4 22.1 1.0
C3 A:SOR400 3.7 21.8 1.0
O A:HOH508 3.7 30.2 1.0
O A:HOH510 3.8 38.1 1.0
O3 A:SOR400 3.8 22.1 1.0
CB A:ASP292 3.8 17.0 1.0
CB A:ASP244 3.9 17.9 1.0
OE2 A:GLU216 3.9 16.4 1.0
CB A:GLU216 4.1 13.0 1.0
CG A:GLU216 4.1 13.3 1.0
CE1 A:HIS219 4.1 8.7 1.0
OD2 A:ASP292 4.1 17.8 1.0
OD1 A:ASP244 4.3 20.2 1.0
NE2 A:HIS219 4.4 10.1 1.0
CG A:GLU180 4.4 16.8 1.0
C5 A:SOR400 4.6 22.3 1.0
C1 A:SOR400 4.6 22.0 1.0
ND2 A:ASN214 4.7 13.9 1.0
O1 A:SOR400 4.9 22.1 1.0
C6 A:SOR400 4.9 23.3 1.0
O6 A:SOR400 4.9 24.4 1.0
ND1 A:HIS219 4.9 9.9 1.0

Magnesium binding site 2 out of 2 in 4xia

Go back to Magnesium Binding Sites List in 4xia
Magnesium binding site 2 out of 2 in the Structures of D-Xylose Isomerase From Arthrobacter Strain B3728 Containing the Inhibitors Xylitol and D-Sorbitol at 2.5 Angstroms and 2.3 Angstroms Resolution, Respectively


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structures of D-Xylose Isomerase From Arthrobacter Strain B3728 Containing the Inhibitors Xylitol and D-Sorbitol at 2.5 Angstroms and 2.3 Angstroms Resolution, Respectively within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg399

b:24.1
occ:1.00
 OE1 B:GLU216 1.9 15.0 1.0
OD2 B:ASP244 2.0 18.0 1.0
OD1 B:ASP292 2.1 17.7 1.0
OE2 B:GLU180 2.2 14.7 1.0
O4 B:SOR400 2.2 23.3 1.0
O2 B:SOR400 2.2 22.1 1.0
CD B:GLU180 3.1 15.3 1.0
CD B:GLU216 3.1 14.0 1.0
CG B:ASP292 3.1 17.8 1.0
CG B:ASP244 3.1 18.1 1.0
OE1 B:GLU180 3.3 16.3 1.0
C2 B:SOR400 3.3 22.2 1.0
C4 B:SOR400 3.3 22.0 1.0
O B:HOH534 3.5 31.3 1.0
C3 B:SOR400 3.6 21.8 1.0
CB B:ASP292 3.7 16.9 1.0
CB B:ASP244 3.8 17.4 1.0
O B:HOH532 3.8 22.8 1.0
O3 B:SOR400 3.8 22.8 1.0
OE2 B:GLU216 3.9 16.1 1.0
OD1 B:ASP244 4.0 16.8 1.0
OD2 B:ASP292 4.1 18.6 1.0
CG B:GLU216 4.1 10.2 1.0
CE1 B:HIS219 4.2 5.7 1.0
CB B:GLU216 4.2 10.5 1.0
CG B:GLU180 4.4 14.1 1.0
C5 B:SOR400 4.4 22.0 1.0
C1 B:SOR400 4.5 22.8 1.0
NE2 B:HIS219 4.6 5.9 1.0
ND2 B:ASN214 4.6 13.7 1.0
C6 B:SOR400 4.9 23.4 1.0
O6 B:SOR400 4.9 24.8 1.0
O1 B:SOR400 5.0 23.8 1.0

Reference:

K.Henrick, C.A.Collyer, D.M.Blow. Structures of D-Xylose Isomerase From Arthrobacter Strain B3728 Containing the Inhibitors Xylitol and D-Sorbitol at 2.5 A and 2.3 A Resolution, Respectively. J.Mol.Biol. V. 208 129 1989.
ISSN: ISSN 0022-2836
PubMed: 2769749
DOI: 10.1016/0022-2836(89)90092-2
Page generated: Tue Aug 12 03:06:47 2025

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