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Xenon in PDB 6l9x: Xenons in Frog EPDR1

Protein crystallography data

The structure of Xenons in Frog EPDR1, PDB code: 6l9x was solved by S.Park, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.90
Space group P 65 2 2
Cell size a, b, c (Å), α, β, γ (°) 61.455, 61.455, 233.838, 90.00, 90.00, 120.00
R / Rfree (%) 21.9 / 30.8

Xenon Binding Sites:

The binding sites of Xenon atom in the Xenons in Frog EPDR1 (pdb code 6l9x). This binding sites where shown within 5.0 Angstroms radius around Xenon atom.
In total 4 binding sites of Xenon where determined in the Xenons in Frog EPDR1, PDB code: 6l9x:
Jump to Xenon binding site number: 1; 2; 3; 4;

Xenon binding site 1 out of 4 in 6l9x

Go back to Xenon Binding Sites List in 6l9x
Xenon binding site 1 out of 4 in the Xenons in Frog EPDR1


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 1 of Xenons in Frog EPDR1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe300

b:1.0
occ:1.00
OD1 A:ASP121 2.6 82.4 1.0
O A:PRO122 2.7 50.5 1.0
OD2 A:ASP121 3.0 87.0 1.0
CG A:ASP121 3.1 82.6 1.0
O A:ASP124 3.8 61.4 1.0
C A:PRO122 3.8 44.8 1.0
N A:ASP124 4.1 48.9 1.0
CA A:TYR123 4.3 46.2 1.0
OE2 A:GLU175 4.3 68.7 1.0
OE1 A:GLU175 4.4 57.9 1.0
NE1 A:TRP161 4.5 49.0 1.0
N A:TYR123 4.5 44.0 1.0
CB A:ASP121 4.6 74.9 1.0
C A:ASP121 4.6 59.6 1.0
N A:PRO122 4.7 47.4 1.0
O A:ASP121 4.7 56.0 1.0
CD A:GLU175 4.8 60.9 1.0
C A:ASP124 4.8 58.4 1.0
C A:TYR123 4.8 49.2 1.0
CD A:PRO122 4.8 43.2 1.0
CE2 A:TRP161 4.9 51.7 1.0
CD1 A:TYR123 4.9 59.6 1.0
CA A:PRO122 4.9 44.4 1.0
CZ2 A:TRP161 4.9 53.9 1.0

Xenon binding site 2 out of 4 in 6l9x

Go back to Xenon Binding Sites List in 6l9x
Xenon binding site 2 out of 4 in the Xenons in Frog EPDR1


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 2 of Xenons in Frog EPDR1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe301

b:96.5
occ:0.70
CG A:GLN174 3.3 66.0 1.0
CG2 A:THR176 3.7 49.1 1.0
O A:VAL162 3.8 49.7 1.0
N A:THR176 3.9 43.9 1.0
C A:GLU175 3.9 42.4 1.0
CG1 A:VAL162 4.0 50.9 1.0
CD A:GLN174 4.0 73.5 1.0
CA A:GLU175 4.0 44.8 1.0
O A:GLN174 4.0 50.8 1.0
CB A:VAL162 4.1 49.5 1.0
OG1 A:THR176 4.1 54.1 1.0
CG2 A:VAL164 4.1 41.2 1.0
C A:GLN174 4.2 48.0 1.0
C A:VAL162 4.2 47.1 1.0
N A:GLU175 4.2 45.4 1.0
NE2 A:GLN174 4.4 69.1 1.0
CB A:THR176 4.4 48.9 1.0
CB A:GLN174 4.5 56.5 1.0
O A:GLU175 4.5 40.9 1.0
OE1 A:GLN174 4.6 78.0 1.0
N A:GLY163 4.6 45.0 1.0
CA A:GLY163 4.6 47.7 1.0
N A:VAL164 4.7 43.4 1.0
CA A:THR176 4.8 49.4 1.0
CA A:VAL162 4.8 50.5 1.0
C A:GLY163 4.8 45.4 1.0
CA A:GLN174 5.0 50.8 1.0

Xenon binding site 3 out of 4 in 6l9x

Go back to Xenon Binding Sites List in 6l9x
Xenon binding site 3 out of 4 in the Xenons in Frog EPDR1


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 3 of Xenons in Frog EPDR1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe302

b:0.4
occ:0.90
CG2 A:THR178 2.5 71.9 1.0
OG1 A:THR176 3.6 54.1 1.0
O A:GLU159 3.7 51.5 1.0
C A:THR160 3.9 51.0 1.0
O A:THR176 3.9 52.3 1.0
CB A:THR178 4.0 72.8 1.0
O A:THR160 4.0 51.8 1.0
N A:THR178 4.0 64.9 1.0
C A:GLU159 4.1 52.3 1.0
N A:TRP161 4.1 52.8 1.0
CA A:THR160 4.1 53.2 1.0
CG2 A:VAL162 4.3 49.3 1.0
C A:THR176 4.3 49.9 1.0
N A:THR160 4.4 51.0 1.0
CB A:THR176 4.5 48.9 1.0
CA A:TRP161 4.5 50.6 1.0
C A:TRP161 4.6 50.4 1.0
CA A:THR178 4.7 72.3 1.0
CB A:GLU159 4.7 59.8 1.0
N A:TYR177 4.7 52.6 1.0
N A:VAL162 4.8 51.8 1.0
O A:TRP161 4.9 46.1 1.0
OG1 A:THR178 4.9 77.4 1.0
CA A:TYR177 4.9 57.9 1.0
C A:TYR177 5.0 58.5 1.0
CA A:GLU159 5.0 58.6 1.0

Xenon binding site 4 out of 4 in 6l9x

Go back to Xenon Binding Sites List in 6l9x
Xenon binding site 4 out of 4 in the Xenons in Frog EPDR1


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 4 of Xenons in Frog EPDR1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe303

b:0.7
occ:0.50
CE2 A:TYR53 4.0 75.2 1.0
OG A:SER186 4.0 54.3 1.0
CD2 A:TYR53 4.2 71.6 1.0
CB A:HIS55 4.5 75.0 1.0
CD2 A:HIS55 4.8 89.8 1.0
CZ A:TYR53 4.8 88.3 1.0
CG A:HIS55 4.9 85.8 1.0
CB A:SER186 4.9 54.3 1.0
N A:SER186 5.0 56.0 1.0

Reference:

S.Park, S.Park. N/A N/A.
Page generated: Wed Dec 16 02:40:29 2020

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