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Magnesium in PDB 7dfk: Crystal Structure of Xylitol-Bound Glucose Isomerase By Serial Millisecond Crystallography

Enzymatic activity of Crystal Structure of Xylitol-Bound Glucose Isomerase By Serial Millisecond Crystallography

All present enzymatic activity of Crystal Structure of Xylitol-Bound Glucose Isomerase By Serial Millisecond Crystallography:
5.3.1.5;

Protein crystallography data

The structure of Crystal Structure of Xylitol-Bound Glucose Isomerase By Serial Millisecond Crystallography, PDB code: 7dfk was solved by K.H.Nam, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 71.78 / 1.40
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 94.138, 99.936, 103.156, 90, 90, 90
R / Rfree (%) 23.5 / 25.1

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Xylitol-Bound Glucose Isomerase By Serial Millisecond Crystallography (pdb code 7dfk). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Crystal Structure of Xylitol-Bound Glucose Isomerase By Serial Millisecond Crystallography, PDB code: 7dfk:

Magnesium binding site 1 out of 1 in 7dfk

Go back to Magnesium Binding Sites List in 7dfk
Magnesium binding site 1 out of 1 in the Crystal Structure of Xylitol-Bound Glucose Isomerase By Serial Millisecond Crystallography


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Xylitol-Bound Glucose Isomerase By Serial Millisecond Crystallography within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg401

b:3.8
occ:1.00
 HO4 A:XYL402 2.0 13.5 1.0
OE2 A:GLU217 2.1 13.6 1.0
OD2 A:ASP245 2.2 13.4 1.0
OD2 A:ASP287 2.2 13.0 1.0
OE2 A:GLU181 2.2 11.7 1.0
O4 A:XYL402 2.3 11.2 1.0
O2 A:XYL402 2.3 13.3 1.0
HO2 A:XYL402 2.4 16.0 1.0
CD A:GLU181 3.1 11.5 1.0
CD A:GLU217 3.2 13.0 1.0
CG A:ASP287 3.2 12.8 1.0
CG A:ASP245 3.3 13.0 1.0
OE1 A:GLU181 3.3 12.2 1.0
C4 A:XYL402 3.3 13.3 1.0
C2 A:XYL402 3.4 11.2 1.0
HB2 A:GLU217 3.5 13.3 1.0
HB3 A:ASP245 3.5 14.8 1.0
HB3 A:ASP287 3.6 13.4 1.0
H2 A:XYL402 3.6 13.4 1.0
H4 A:XYL402 3.6 16.0 1.0
C3 A:XYL402 3.6 10.9 1.0
O3 A:XYL402 3.7 15.7 1.0
HB2 A:ASP287 3.7 13.4 1.0
CB A:ASP287 3.8 11.2 1.0
CB A:ASP245 3.8 12.4 1.0
HB2 A:ASP245 3.8 14.8 1.0
HE1 A:HIS220 3.8 15.9 1.0
OE1 A:GLU217 3.9 12.6 1.0
O A:HOH620 4.0 16.7 1.0
O A:HOH716 4.0 18.7 1.0
OD1 A:ASP287 4.2 11.9 1.0
CG A:GLU217 4.2 10.8 1.0
CE1 A:HIS220 4.2 13.2 1.0
OD1 A:ASP245 4.2 14.0 1.0
HD21 A:ASN215 4.3 14.9 1.0
CB A:GLU217 4.3 11.1 1.0
HO3 A:XYL402 4.4 18.9 1.0
CG A:GLU181 4.4 11.1 1.0
HG3 A:GLU217 4.5 12.9 1.0
NE2 A:HIS220 4.5 14.3 1.0
C5 A:XYL402 4.6 15.3 1.0
HZ2 A:TRP16 4.6 18.6 1.0
HD22 A:ASN215 4.6 14.9 1.0
H3 A:XYL402 4.6 13.1 1.0
HG3 A:GLU181 4.6 13.3 1.0
HB3 A:GLU217 4.6 13.3 1.0
H51 A:XYL402 4.6 18.4 1.0
C1 A:XYL402 4.6 10.7 1.0
HG2 A:GLU181 4.7 13.3 1.0
ND2 A:ASN215 4.7 12.4 1.0
H12 A:XYL402 4.7 12.9 1.0
HO1 A:XYL402 4.7 17.7 1.0
H52 A:XYL402 4.7 18.4 1.0

Reference:

K.H.Nam, K.H.Nam. N/A N/A.
Page generated: Wed Oct 2 15:50:58 2024

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