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Krypton in PDB 6rgm: Urate Oxidase Under 130 Bar of Krypton

Enzymatic activity of Urate Oxidase Under 130 Bar of Krypton

All present enzymatic activity of Urate Oxidase Under 130 Bar of Krypton:
1.7.3.3;

Protein crystallography data

The structure of Urate Oxidase Under 130 Bar of Krypton, PDB code: 6rgm was solved by T.Prange, N.Colloc'h, P.Carpentier, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 70.14 / 1.50
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 78.250, 94.940, 104.080, 90.00, 90.00, 90.00
R / Rfree (%) 14 / 16.9

Other elements in 6rgm:

The structure of Urate Oxidase Under 130 Bar of Krypton also contains other interesting chemical elements:

Sodium (Na) 1 atom

Krypton Binding Sites:

The binding sites of Krypton atom in the Urate Oxidase Under 130 Bar of Krypton (pdb code 6rgm). This binding sites where shown within 5.0 Angstroms radius around Krypton atom.
In total 3 binding sites of Krypton where determined in the Urate Oxidase Under 130 Bar of Krypton, PDB code: 6rgm:
Jump to Krypton binding site number: 1; 2; 3;

Krypton binding site 1 out of 3 in 6rgm

Go back to Krypton Binding Sites List in 6rgm
Krypton binding site 1 out of 3 in the Urate Oxidase Under 130 Bar of Krypton


Mono view


Stereo pair view

A full contact list of Krypton with other atoms in the Kr binding site number 1 of Urate Oxidase Under 130 Bar of Krypton within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Kr1108

b:28.9
occ:1.00
CG2 A:THR230 3.7 19.4 1.0
CD1 A:LEU252 3.8 18.5 1.0
CB A:THR230 3.9 18.1 1.0
CD2 A:LEU178 4.1 19.4 1.0
CD1 A:PHE219 4.1 17.5 1.0
CE A:MET234 4.2 20.2 1.0
CG1 A:VAL227 4.3 17.2 1.0
O A:VAL227 4.3 15.5 1.0
CE1 A:PHE219 4.5 17.9 1.0
CA A:VAL227 4.5 16.4 1.0
N A:MET231 4.5 17.9 1.0
CB A:VAL227 4.8 16.2 1.0
OG1 A:THR230 4.8 18.7 1.0
C A:THR230 4.8 17.9 1.0
CG2 A:THR180 4.8 17.2 1.0
CG2 A:VAL227 4.9 17.3 1.0
C A:VAL227 4.9 15.0 1.0
CA A:THR230 4.9 16.7 1.0
CG A:LEU178 5.0 17.3 1.0

Krypton binding site 2 out of 3 in 6rgm

Go back to Krypton Binding Sites List in 6rgm
Krypton binding site 2 out of 3 in the Urate Oxidase Under 130 Bar of Krypton


Mono view


Stereo pair view

A full contact list of Krypton with other atoms in the Kr binding site number 2 of Urate Oxidase Under 130 Bar of Krypton within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Kr1109

b:23.0
occ:0.70
CE A:MET32 3.3 24.9 0.5
CG A:MET32 3.4 14.9 0.5
O A:TYR30 3.5 17.9 1.0
O A:VAL15 3.5 15.8 1.0
N A:LYS17 3.7 16.0 1.0
CG1 A:VAL15 3.8 16.9 1.0
CG A:MET32 3.8 14.9 0.5
C A:TYR30 3.8 16.2 1.0
CB A:TYR30 3.8 16.4 1.0
C A:VAL15 3.9 14.6 1.0
CE A:MET32 3.9 24.9 0.5
CG2 A:VAL73 3.9 20.5 1.0
C A:TYR16 3.9 13.9 1.0
SD A:MET32 3.9 16.3 0.5
CB A:LYS17 4.0 15.7 1.0
CA A:TYR16 4.0 13.3 1.0
CB A:VAL73 4.1 18.8 1.0
CB A:VAL15 4.1 15.1 1.0
CG1 A:VAL73 4.1 19.4 1.0
CA A:GLU31 4.2 15.0 1.0
N A:GLU31 4.2 14.8 1.0
N A:TYR16 4.2 14.6 1.0
N A:MET32 4.2 19.0 1.0
SD A:MET32 4.3 16.3 0.5
C A:GLU31 4.4 13.8 1.0
CA A:LYS17 4.5 16.0 1.0
CA A:TYR30 4.5 17.1 1.0
CB A:MET32 4.6 13.7 0.5
O A:TYR16 4.6 15.7 1.0
CB A:MET32 4.7 13.7 0.5
CA A:VAL15 4.7 13.9 1.0
O A:HOH1277 4.8 56.7 1.0

Krypton binding site 3 out of 3 in 6rgm

Go back to Krypton Binding Sites List in 6rgm
Krypton binding site 3 out of 3 in the Urate Oxidase Under 130 Bar of Krypton


Mono view


Stereo pair view

A full contact list of Krypton with other atoms in the Kr binding site number 3 of Urate Oxidase Under 130 Bar of Krypton within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Kr1110

b:32.9
occ:0.05
CG2 A:THR210 2.7 27.8 1.0
CB A:THR210 3.1 26.6 1.0
O A:HOH1539 3.3 37.8 1.0
O A:ILE238 3.6 21.2 1.0
CG2 A:ILE238 3.6 21.8 1.0
CG2 A:THR207 3.7 22.0 1.0
CB A:ARG241 3.9 28.2 1.0
OG1 A:THR210 3.9 30.1 1.0
CB A:GLN242 3.9 24.1 1.0
O A:THR207 4.0 19.5 1.0
CA A:ILE238 4.2 20.5 1.0
C A:ARG241 4.2 26.6 1.0
CA A:THR207 4.2 19.2 1.0
C A:ILE238 4.3 19.5 1.0
CB A:ILE238 4.4 21.0 1.0
O A:ARG241 4.4 31.4 1.0
N A:GLN242 4.4 24.5 1.0
CA A:THR210 4.4 23.9 1.0
N A:ALA211 4.4 21.1 1.0
CB A:THR207 4.4 21.5 1.0
C A:THR210 4.5 21.7 1.0
CA A:ARG241 4.6 24.1 1.0
C A:THR207 4.6 18.9 1.0
OG1 A:THR207 4.7 23.9 1.0
CG1 A:ILE238 4.7 22.1 1.0
CA A:GLN242 4.8 25.2 1.0
CD1 A:ILE245 5.0 20.5 0.5

Reference:

T.Prange, N.Colloc'h, P.Carpentier. Structure of Urate Oxidase Under High Pressure of Krypton To Be Published.
Page generated: Mon Dec 14 02:56:50 2020

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