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Xenon in PDB 4zzc: The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon

Protein crystallography data

The structure of The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon, PDB code: 4zzc was solved by L.Sauguet, Z.Fourati, T.Prange, M.Delarue, N.Colloc'h, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 3.10
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 180.000, 132.820, 159.150, 90.00, 101.88, 90.00
R / Rfree (%) 20.8 / 22.8

Other elements in 4zzc:

The structure of The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon also contains other interesting chemical elements:

Chlorine (Cl) 5 atoms
Sodium (Na) 6 atoms

Xenon Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 35;

Binding sites:

The binding sites of Xenon atom in the The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon (pdb code 4zzc). This binding sites where shown within 5.0 Angstroms radius around Xenon atom.
In total 35 binding sites of Xenon where determined in the The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon, PDB code: 4zzc:
Jump to Xenon binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Xenon binding site 1 out of 35 in 4zzc

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Xenon binding site 1 out of 35 in the The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 1 of The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe409

b:0.5
occ:1.00
CD1 A:ILE233 3.6 66.2 1.0
CD2 A:LEU232 3.6 62.0 1.0
CG1 A:ILE233 3.8 55.1 1.0
CG2 E:THR231 3.9 51.5 1.0
O A:VAL229 4.0 51.0 1.0
CA E:THR231 4.0 58.1 1.0
N E:THR231 4.0 59.6 1.0
CB E:ALA234 4.1 55.8 1.0
O E:SER230 4.1 59.8 1.0
C E:SER230 4.1 62.6 1.0
CG A:LEU232 4.2 59.9 1.0
CB E:SER230 4.4 63.7 1.0
CG2 E:ILE208 4.4 63.2 1.0
CG1 A:VAL229 4.4 54.0 1.0
CG2 A:VAL229 4.5 54.3 1.0
CB A:LEU232 4.5 57.2 1.0
CA A:VAL229 4.5 52.2 1.0
CB E:THR231 4.6 59.8 1.0
C A:VAL229 4.6 53.4 1.0
CD1 A:ILE236 4.7 71.5 1.0
CB A:VAL229 4.7 54.7 1.0
N A:ILE233 4.8 52.7 1.0
CB E:ILE208 4.9 64.6 1.0
CA E:SER230 4.9 59.2 1.0
CB A:ILE233 5.0 55.0 1.0

Xenon binding site 2 out of 35 in 4zzc

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Xenon binding site 2 out of 35 in the The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 2 of The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe410

b:88.0
occ:0.90
CG2 A:THR255 3.4 64.3 1.0
CG2 A:ILE201 3.7 57.6 1.0
OG1 A:THR255 3.8 76.7 1.0
CD1 A:TYR197 3.8 70.7 1.0
CG A:PRO120 4.0 65.3 1.0
CD A:PRO120 4.2 61.3 1.0
CB A:THR255 4.2 70.5 1.0
CB A:ILE201 4.3 58.4 1.0
CE1 A:TYR119 4.4 63.2 1.0
XE A:XE411 4.4 0.8 0.5
CB A:TYR197 4.4 68.4 1.0
CG1 A:ILE202 4.4 56.0 1.0
CG A:TYR197 4.4 68.9 1.0
CG2 A:VAL242 4.5 68.0 1.0
CD1 A:ILE202 4.5 59.5 1.0
CE1 A:TYR197 4.6 71.5 1.0
CB A:PRO120 4.7 61.2 1.0
XE A:XE411 4.7 0.4 0.5
CG1 A:VAL242 4.9 67.7 1.0
CD1 A:TYR119 4.9 64.4 1.0
CG1 A:ILE201 5.0 57.2 1.0

Xenon binding site 3 out of 35 in 4zzc

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Xenon binding site 3 out of 35 in the The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 3 of The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe411

b:0.4
occ:0.50
XE A:XE411 0.0 0.4 0.5
CD1 A:ILE258 3.4 81.4 1.0
XE A:XE411 3.5 0.8 0.5
CG1 A:ILE202 3.8 56.0 1.0
OG1 A:THR255 3.8 76.7 1.0
CD1 A:ILE202 3.8 59.5 1.0
CE1 A:TYR254 3.9 75.5 1.0
CD1 A:TYR254 4.1 73.6 1.0
CE2 A:PHE121 4.2 77.7 1.0
CA A:THR255 4.2 65.3 1.0
CD A:PRO120 4.4 61.3 1.0
C4B A:PLC402 4.4 91.4 1.0
CB A:THR255 4.5 70.5 1.0
CG1 A:ILE258 4.6 68.5 1.0
C6B A:PLC402 4.6 89.3 1.0
N A:THR255 4.7 66.9 1.0
CG2 A:THR255 4.7 64.3 1.0
XE A:XE410 4.7 88.0 0.9
CZ A:PHE121 4.9 76.4 1.0
CZ A:TYR254 4.9 83.1 1.0
CB A:ILE258 4.9 66.2 1.0
C5B A:PLC402 5.0 90.5 1.0

Xenon binding site 4 out of 35 in 4zzc

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Xenon binding site 4 out of 35 in the The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 4 of The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe411

b:0.8
occ:0.50
XE A:XE411 0.0 0.8 0.5
XE A:XE411 3.5 0.4 0.5
CG2 A:THR255 3.8 64.3 1.0
SD A:MET205 3.9 75.7 1.0
CG1 A:ILE259 3.9 57.8 1.0
CG2 A:ILE258 4.1 66.2 1.0
CE A:MET205 4.1 71.2 1.0
O A:THR255 4.2 69.5 1.0
CG1 A:ILE202 4.2 56.0 1.0
CD1 A:ILE259 4.3 53.6 1.0
XE A:XE410 4.4 88.0 0.9
CA A:THR255 4.4 65.3 1.0
CB A:ILE258 4.4 66.2 1.0
CB A:THR255 4.5 70.5 1.0
CG2 A:ILE201 4.7 57.6 1.0
OG1 A:THR255 4.7 76.7 1.0
C A:THR255 4.8 68.2 1.0
CD1 A:ILE258 4.8 81.4 1.0
CA A:ILE202 4.9 54.1 1.0
N A:ILE259 4.9 57.8 1.0

Xenon binding site 5 out of 35 in 4zzc

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Xenon binding site 5 out of 35 in the The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 5 of The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe412

b:44.1
occ:0.20
CG1 A:VAL270 3.5 73.9 1.0
CG2 A:VAL270 3.6 72.5 1.0
CA A:VAL270 3.8 70.2 1.0
CB A:VAL270 3.8 73.7 1.0
CG1 A:VAL273 3.9 59.9 1.0
CB A:VAL228 4.0 63.6 1.0
CA A:VAL225 4.1 66.5 1.0
CG2 A:VAL228 4.2 64.4 1.0
CD2 E:LEU227 4.3 77.5 1.0
CB A:VAL273 4.3 59.8 1.0
O A:VAL270 4.3 75.3 1.0
CG2 A:VAL225 4.4 71.9 1.0
CG1 A:VAL228 4.4 63.2 1.0
C A:VAL270 4.6 74.8 1.0
O A:VAL225 4.6 66.4 1.0
CB A:VAL225 4.6 71.1 1.0
N A:VAL225 4.8 67.1 1.0
N A:VAL270 4.8 69.9 1.0
C A:VAL225 4.9 69.0 1.0
CG1 A:VAL225 4.9 70.0 1.0
OG1 A:THR274 4.9 69.8 1.0
CG2 A:VAL229 5.0 54.3 1.0
CG2 A:VAL273 5.0 58.9 1.0
O A:ASN224 5.0 69.7 1.0

Xenon binding site 6 out of 35 in 4zzc

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Xenon binding site 6 out of 35 in the The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 6 of The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe413

b:60.0
occ:0.20
CD1 A:ILE128 3.3 85.7 1.0
CG1 A:ILE128 3.3 75.2 1.0
CB A:LEU188 3.5 65.7 1.0
CE1 A:PHE165 3.6 85.7 1.0
CZ A:PHE37 3.8 82.5 1.0
CE2 A:PHE37 4.0 84.2 1.0
O A:TYR186 4.1 75.2 1.0
CB A:ILE128 4.1 75.0 1.0
CD2 A:LEU188 4.2 67.9 1.0
CD1 A:PHE165 4.2 85.1 1.0
N A:LEU188 4.2 67.9 1.0
O A:LEU126 4.4 79.1 1.0
N A:ILE128 4.4 74.3 1.0
C A:HIS127 4.4 79.9 1.0
CG A:LEU188 4.5 68.8 1.0
CA A:LEU188 4.5 66.9 1.0
C A:LEU126 4.5 79.1 1.0
CB A:LEU126 4.6 70.1 1.0
CZ A:PHE165 4.6 85.4 1.0
O A:HIS127 4.7 79.8 1.0
C A:TYR186 4.7 76.8 1.0
N A:HIS127 4.8 77.2 1.0
CA A:HIS127 4.8 77.7 1.0
CA A:ILE128 4.8 72.7 1.0
C A:GLN187 4.9 73.6 1.0
CD2 A:LEU24 4.9 77.0 1.0
CE1 A:PHE37 4.9 81.7 1.0
CD1 A:LEU24 4.9 74.5 1.0

Xenon binding site 7 out of 35 in 4zzc

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Xenon binding site 7 out of 35 in the The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 7 of The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Xe414

b:56.7
occ:0.20
CE2 A:PHE299 4.2 78.9 1.0
CD2 A:PHE299 4.2 76.3 1.0
CB A:VAL302 4.2 73.7 1.0
CZ A:PHE299 4.2 75.2 1.0
CG2 A:VAL302 4.2 75.1 1.0
CG A:PHE299 4.3 73.7 1.0
CE1 A:PHE299 4.3 75.0 1.0
CD1 A:PHE299 4.3 75.1 1.0
CG1 A:VAL268 4.3 75.6 1.0
CG1 A:VAL302 4.3 72.3 1.0
CA A:PHE299 4.4 72.3 1.0
N A:PHE299 4.5 75.0 1.0
O A:ALA298 4.6 79.9 1.0
C A:ALA298 4.6 80.2 1.0
CE1 A:PHE265 4.7 86.0 1.0
CB A:ALA298 4.9 77.8 1.0
CD1 A:PHE265 5.0 83.9 1.0
CB A:PHE299 5.0 72.7 1.0

Xenon binding site 8 out of 35 in 4zzc

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Xenon binding site 8 out of 35 in the The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 8 of The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Xe408

b:95.6
occ:1.00
CD2 B:LEU232 3.5 53.9 1.0
CD1 B:ILE233 3.6 55.4 1.0
CG1 B:ILE233 3.8 54.2 1.0
O B:VAL229 4.0 53.4 1.0
CG2 A:THR231 4.0 62.3 1.0
CB A:ALA234 4.0 57.8 1.0
CA A:THR231 4.1 56.9 1.0
CG B:LEU232 4.1 55.5 1.0
N A:THR231 4.1 55.3 1.0
O A:SER230 4.1 52.4 1.0
C A:SER230 4.2 54.9 1.0
CG2 A:ILE208 4.4 69.2 1.0
CB A:SER230 4.5 52.1 1.0
CB B:LEU232 4.5 52.3 1.0
CG1 B:VAL229 4.5 57.0 1.0
CG2 B:VAL229 4.6 56.2 1.0
CA B:VAL229 4.6 52.3 1.0
CD1 B:ILE236 4.6 68.0 1.0
CB A:THR231 4.6 63.9 1.0
C B:VAL229 4.6 55.2 1.0
N B:ILE233 4.7 52.2 1.0
CB B:VAL229 4.7 56.5 1.0
CB A:ILE208 4.9 68.8 1.0
CB B:ILE233 5.0 54.6 1.0
CA A:SER230 5.0 49.3 1.0

Xenon binding site 9 out of 35 in 4zzc

Go back to Xenon Binding Sites List in 4zzc
Xenon binding site 9 out of 35 in the The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 9 of The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Xe409

b:87.3
occ:0.90
CG2 B:THR255 3.4 59.9 1.0
OG1 B:THR255 3.7 70.2 1.0
CD1 B:TYR197 3.8 69.3 1.0
CG2 B:ILE201 3.8 63.2 1.0
CG B:PRO120 3.9 65.1 1.0
CD B:PRO120 4.1 60.8 1.0
CB B:THR255 4.2 66.0 1.0
CG1 B:ILE202 4.3 54.9 1.0
CB B:TYR197 4.4 67.6 1.0
CD1 B:ILE202 4.4 60.0 1.0
CE1 B:TYR119 4.4 56.4 1.0
CB B:ILE201 4.4 62.7 1.0
XE B:XE410 4.4 86.3 0.5
CG B:TYR197 4.4 68.2 1.0
XE B:XE410 4.5 94.1 0.5
CG2 B:VAL242 4.6 66.2 1.0
CE1 B:TYR197 4.6 69.7 1.0
CB B:PRO120 4.7 61.2 1.0
CD1 B:TYR119 4.9 56.3 1.0
CG1 B:VAL242 4.9 65.7 1.0

Xenon binding site 10 out of 35 in 4zzc

Go back to Xenon Binding Sites List in 4zzc
Xenon binding site 10 out of 35 in the The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon


Mono view


Stereo pair view

A full contact list of Xenon with other atoms in the Xe binding site number 10 of The Glic Pentameric Ligand-Gated Ion Channel Open Form Complexed to Xenon within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Xe410

b:94.1
occ:0.50
XE B:XE410 0.0 94.1 0.5
CD1 B:ILE258 3.4 79.3 1.0
XE B:XE410 3.5 86.3 0.5
OG1 B:THR255 3.6 70.2 1.0
CG1 B:ILE202 3.8 54.9 1.0
CD1 B:ILE202 3.8 60.0 1.0
CE1 B:TYR254 3.9 75.8 1.0
CD1 B:TYR254 4.1 73.4 1.0
CE2 B:PHE121 4.1 76.4 1.0
CA B:THR255 4.2 62.5 1.0
CD B:PRO120 4.2 60.8 1.0
CB B:THR255 4.4 66.0 1.0
C4B B:PLC402 4.5 96.6 1.0
XE B:XE409 4.5 87.3 0.9
CG1 B:ILE258 4.7 67.4 1.0
CG2 B:THR255 4.7 59.9 1.0
N B:THR255 4.7 64.5 1.0
CZ B:PHE121 4.8 74.6 1.0
CZ B:TYR254 4.9 84.8 1.0
CB B:ILE258 5.0 65.3 1.0

Reference:

L.Sauguet, Z.Fourati, T.Prange, M.Delarue, N.Colloc'h. Structural Basis For Xenon Inhibition in A Cationic Pentameric Ligand-Gated Ion Channel. Plos One V. 11 49795 2016.
ISSN: ESSN 1932-6203
PubMed: 26910105
DOI: 10.1371/JOURNAL.PONE.0149795
Page generated: Sun Nov 1 12:23:45 2020

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