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Xenon in PDB 3pkg: Urate Oxidase Under 2 Mpa / 20 Bars Pressure of Xenon

Enzymatic activity of Urate Oxidase Under 2 Mpa / 20 Bars Pressure of Xenon

All present enzymatic activity of Urate Oxidase Under 2 Mpa / 20 Bars Pressure of Xenon:
1.7.3.3;

Protein crystallography data

The structure of Urate Oxidase Under 2 Mpa / 20 Bars Pressure of Xenon, PDB code: 3pkg was solved by G.Marassio, N.Colloc'h, T.Prange, J.H.Abraini, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.29 / 1.60
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 80.318, 96.319, 105.582, 90.00, 90.00, 90.00
R / Rfree (%) 17.9 / 19.2

Other elements in 3pkg:

The structure of Urate Oxidase Under 2 Mpa / 20 Bars Pressure of Xenon also contains other interesting chemical elements:

Sodium (Na) 1 atom

Xenon Binding Sites:

The binding sites of Xenon atom in the Urate Oxidase Under 2 Mpa / 20 Bars Pressure of Xenon (pdb code 3pkg). This binding sites where shown within 5.0 Angstroms radius around Xenon atom.
In total 2 binding sites of Xenon where determined in the Urate Oxidase Under 2 Mpa / 20 Bars Pressure of Xenon, PDB code: 3pkg:
Jump to Xenon binding site number: 1; 2;

Xenon binding site 1 out of 2 in 3pkg

Go back to Xenon Binding Sites List in 3pkg
Xenon binding site 1 out of 2 in the Urate Oxidase Under 2 Mpa / 20 Bars Pressure of Xenon


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 1 of Urate Oxidase Under 2 Mpa / 20 Bars Pressure of Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe801

b:36.5
occ:1.00
CD1 A:LEU252 3.9 19.1 1.0
CG2 A:THR230 3.9 17.6 1.0
CD1 A:PHE219 4.0 18.8 1.0
CB A:THR230 4.1 17.1 1.0
CD2 A:LEU178 4.2 18.5 1.0
CG1 A:VAL227 4.3 15.8 1.0
CE1 A:PHE219 4.3 18.2 1.0
CE A:MET234 4.4 20.4 1.0
O A:VAL227 4.4 15.8 1.0
CA A:VAL227 4.5 15.3 1.0
CG2 A:THR180 4.7 15.5 1.0
CB A:VAL227 4.8 15.1 1.0
N A:MET231 4.8 16.6 1.0
CG2 A:VAL227 4.8 13.9 1.0
CG A:LEU178 4.9 16.1 1.0
OG1 A:THR230 4.9 17.8 1.0
C A:VAL227 5.0 14.8 1.0

Xenon binding site 2 out of 2 in 3pkg

Go back to Xenon Binding Sites List in 3pkg
Xenon binding site 2 out of 2 in the Urate Oxidase Under 2 Mpa / 20 Bars Pressure of Xenon


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 2 of Urate Oxidase Under 2 Mpa / 20 Bars Pressure of Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe802

b:36.1
occ:0.22
CE A:MET32 2.1 19.9 0.5
SD A:MET32 3.5 21.9 0.5
O A:VAL15 3.6 13.0 1.0
O A:TYR30 3.6 15.6 1.0
CG1 A:VAL15 3.6 16.9 1.0
CG A:MET32 3.7 15.5 0.5
SD A:MET32 3.7 20.4 0.5
CE A:MET32 3.8 20.6 0.5
CG A:MET32 3.8 15.6 0.5
N A:LYS17 3.9 13.1 1.0
C A:VAL15 3.9 12.1 1.0
CG2 A:VAL73 4.0 19.7 1.0
CB A:LYS17 4.0 14.2 1.0
CB A:VAL15 4.0 12.9 1.0
CB A:TYR30 4.0 15.7 1.0
C A:TYR30 4.1 14.8 1.0
CG1 A:VAL73 4.1 19.1 1.0
C A:TYR16 4.1 12.2 1.0
CB A:VAL73 4.2 18.6 1.0
CA A:TYR16 4.2 12.6 1.0
CB A:MET32 4.3 14.1 0.5
N A:TYR16 4.3 12.5 1.0
N A:MET32 4.3 12.3 1.0
CB A:MET32 4.4 14.6 0.5
CA A:GLU31 4.5 12.9 1.0
N A:GLU31 4.5 13.5 1.0
CA A:LYS17 4.6 14.4 1.0
C A:GLU31 4.6 12.3 1.0
CA A:VAL15 4.7 12.7 1.0
CA A:TYR30 4.8 15.5 1.0
O A:TYR16 4.8 13.0 1.0

Reference:

G.Marassio, T.Prange, H.N.David, J.Sopkova-De Oliveira Santos, L.Gabison, N.Delcroix, J.H.Abraini, N.Colloc'h. Pressure-Response Analysis of Anesthetic Gases Xenon and Nitrous Oxide on Urate Oxidase: A Crystallographic Study. Faseb J. V. 25 2266 2011.
ISSN: ISSN 0892-6638
PubMed: 21421845
DOI: 10.1096/FJ.11-183046
Page generated: Wed Dec 16 02:39:56 2020

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