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Magnesium in PDB 5xia: 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: 5xia 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 / 2.50
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 105.900, 105.900, 153.600, 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 5xia). 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: 5xia:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 5xia

Go back to Magnesium Binding Sites List in 5xia
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:16.3
occ:1.00
 OE1 A:GLU216 2.0 17.2 1.0
OD2 A:ASP244 2.1 20.5 1.0
O4 A:XYL400 2.1 19.3 1.0
OD1 A:ASP292 2.2 16.2 1.0
OE2 A:GLU180 2.2 20.9 1.0
O2 A:XYL400 2.4 15.3 1.0
CD A:GLU180 3.0 19.2 1.0
OE1 A:GLU180 3.0 18.7 1.0
CD A:GLU216 3.2 17.9 1.0
CG A:ASP244 3.3 19.5 1.0
C4 A:XYL400 3.3 18.2 1.0
CG A:ASP292 3.3 15.5 1.0
C2 A:XYL400 3.4 15.5 1.0
C3 A:XYL400 3.6 16.9 1.0
O3 A:XYL400 3.7 16.6 1.0
CB A:ASP244 3.9 17.3 1.0
O A:HOH509 4.0 17.5 1.0
CB A:ASP292 4.0 14.7 1.0
O A:HOH507 4.1 22.6 1.0
CE1 A:HIS219 4.1 13.0 1.0
OE2 A:GLU216 4.1 16.4 1.0
CB A:GLU216 4.2 15.0 1.0
CG A:GLU216 4.2 14.2 1.0
OD2 A:ASP292 4.2 15.5 1.0
OD1 A:ASP244 4.3 21.1 1.0
NE2 A:HIS219 4.3 15.3 1.0
CG A:GLU180 4.4 17.7 1.0
C5 A:XYL400 4.6 18.9 1.0
C1 A:XYL400 4.6 14.2 1.0
ND2 A:ASN214 4.7 15.1 1.0
O1 A:XYL400 5.0 14.7 1.0

Magnesium binding site 2 out of 2 in 5xia

Go back to Magnesium Binding Sites List in 5xia
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:17.3
occ:1.00
 OD2 B:ASP244 1.9 23.7 1.0
OD1 B:ASP292 2.0 15.9 1.0
OE1 B:GLU216 2.0 18.3 1.0
OE2 B:GLU180 2.1 16.0 1.0
O4 B:XYL400 2.2 17.4 1.0
O2 B:XYL400 2.2 16.0 1.0
CD B:GLU180 3.0 14.8 1.0
CG B:ASP292 3.1 16.7 1.0
CG B:ASP244 3.1 22.0 1.0
CD B:GLU216 3.2 16.7 1.0
OE1 B:GLU180 3.3 13.8 1.0
C2 B:XYL400 3.3 16.0 1.0
C4 B:XYL400 3.4 16.2 1.0
C3 B:XYL400 3.6 16.7 1.0
O3 B:XYL400 3.6 17.2 1.0
CB B:ASP292 3.8 15.8 1.0
CB B:ASP244 3.8 18.3 1.0
O B:HOH530 3.8 16.4 1.0
O B:HOH532 3.9 20.9 1.0
OE2 B:GLU216 4.0 16.6 1.0
OD1 B:ASP244 4.1 22.2 1.0
OD2 B:ASP292 4.1 16.3 1.0
CE1 B:HIS219 4.3 10.3 1.0
CG B:GLU216 4.3 14.1 1.0
CB B:GLU216 4.3 14.2 1.0
CG B:GLU180 4.4 13.3 1.0
C5 B:XYL400 4.4 16.0 1.0
C1 B:XYL400 4.5 16.3 1.0
NE2 B:HIS219 4.5 10.9 1.0
ND2 B:ASN214 4.6 15.6 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: Mon Sep 30 09:23:06 2024

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