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Magnesium in PDB 5keu: Crystal Structure of A Taurine Dioxygenase From Burkholderia Xenovorans

Protein crystallography data

The structure of Crystal Structure of A Taurine Dioxygenase From Burkholderia Xenovorans, PDB code: 5keu was solved by Seattle Structural Genomics Center For Infectious Disease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 41.06 / 1.85
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 108.270, 133.130, 55.440, 90.00, 90.00, 90.00
R / Rfree (%) 15.1 / 17.8

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of A Taurine Dioxygenase From Burkholderia Xenovorans (pdb code 5keu). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of A Taurine Dioxygenase From Burkholderia Xenovorans, PDB code: 5keu:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 5keu

Go back to Magnesium Binding Sites List in 5keu
Magnesium binding site 1 out of 2 in the Crystal Structure of A Taurine Dioxygenase From Burkholderia Xenovorans


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 A Taurine Dioxygenase From Burkholderia Xenovorans within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg409

b:9.6
occ:1.00
O A:ASN315 1.8 34.9 1.0
NE2 A:HIS115 2.0 16.7 1.0
NE2 A:HIS265 2.1 20.1 1.0
O A:HOH533 2.2 25.0 1.0
OD1 A:ASP117 2.2 28.7 1.0
O A:HOH648 2.3 28.8 1.0
C A:ASN315 2.8 47.7 1.0
CE1 A:HIS265 2.9 18.4 1.0
CD2 A:HIS115 3.0 15.8 1.0
CE1 A:HIS115 3.0 18.4 1.0
CD2 A:HIS265 3.1 16.6 1.0
OXT A:ASN315 3.2 46.2 1.0
CG A:ASP117 3.3 29.3 1.0
OD2 A:ASP117 3.6 25.8 1.0
ND1 A:HIS265 4.0 18.0 1.0
ND1 A:HIS115 4.1 15.6 1.0
CG A:HIS115 4.1 15.3 1.0
CA A:ASN315 4.1 56.0 1.0
O A:HOH754 4.2 34.7 1.0
CG A:HIS265 4.2 16.3 1.0
CB A:ASN315 4.5 49.0 1.0
O A:HOH747 4.5 33.4 1.0
CB A:ASP117 4.6 17.1 1.0
CA A:ASP117 4.8 14.3 1.0
O A:HOH796 5.0 33.3 1.0

Magnesium binding site 2 out of 2 in 5keu

Go back to Magnesium Binding Sites List in 5keu
Magnesium binding site 2 out of 2 in the Crystal Structure of A Taurine Dioxygenase From Burkholderia Xenovorans


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of A Taurine Dioxygenase From Burkholderia Xenovorans within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg417

b:4.4
occ:1.00
NE2 B:HIS115 1.9 16.8 1.0
O B:HOH561 2.0 23.3 1.0
O B:ASN315 2.1 40.3 1.0
NE2 B:HIS265 2.1 18.9 1.0
O B:HOH676 2.1 22.8 1.0
OD1 B:ASP117 2.2 22.6 1.0
CE1 B:HIS115 2.9 19.4 1.0
CD2 B:HIS115 2.9 15.8 1.0
CE1 B:HIS265 2.9 19.3 1.0
C B:ASN315 3.0 42.9 1.0
CD2 B:HIS265 3.1 18.0 1.0
CG B:ASP117 3.2 25.5 1.0
OXT B:ASN315 3.3 39.5 1.0
OD2 B:ASP117 3.5 21.3 1.0
ND1 B:HIS115 4.0 14.0 1.0
CG B:HIS115 4.0 14.8 1.0
ND1 B:HIS265 4.1 19.9 1.0
CG B:HIS265 4.2 15.3 1.0
CA B:ASN315 4.3 35.3 1.0
O B:HOH745 4.4 29.3 1.0
O B:HOH729 4.4 27.2 1.0
CB B:ASP117 4.5 16.4 1.0
CB B:ASN315 4.6 32.3 1.0
O B:HOH791 4.7 32.0 1.0
O1 B:FMT415 4.7 27.0 0.6
CA B:ASP117 4.8 18.4 1.0
O B:HOH608 5.0 26.9 1.0

Reference:

D.M.Dranow, D.Lorimer, T.E.Edwards. Crystal Structure of A Taurine Dioxygenase From Burkholderia Xenovorans To Be Published.
Page generated: Tue Aug 12 13:05:44 2025

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