Atomistry » Sodium » PDB 4hfd-4i05 » 4hfe
Atomistry »
  Sodium »
    PDB 4hfd-4i05 »
      4hfe »

Sodium in PDB 4hfe: The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant Complexed to Ethanol

Protein crystallography data

The structure of The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant Complexed to Ethanol, PDB code: 4hfe was solved by L.Sauguet, R.J.Howard, L.Malherbe, U.S.Lee, P.J.Corringer, R.A.Harris, M.Delarue, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.80
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 180.990, 133.620, 159.130, 90.00, 102.17, 90.00
R / Rfree (%) 20.5 / 21.5

Other elements in 4hfe:

The structure of The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant Complexed to Ethanol also contains other interesting chemical elements:

Chlorine (Cl) 7 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant Complexed to Ethanol (pdb code 4hfe). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 6 binding sites of Sodium where determined in the The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant Complexed to Ethanol, PDB code: 4hfe:
Jump to Sodium binding site number: 1; 2; 3; 4; 5; 6;

Sodium binding site 1 out of 6 in 4hfe

Go back to Sodium Binding Sites List in 4hfe
Sodium binding site 1 out of 6 in the The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant Complexed to Ethanol


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant Complexed to Ethanol within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na405

b:86.7
occ:1.00
 O A:ILE71 2.7 0.9 1.0
N A:ILE73 3.4 93.2 1.0
O A:PRO68 3.5 0.5 1.0
C A:ILE71 3.7 0.8 1.0
CA A:TRP72 3.8 98.8 1.0
C A:TRP72 3.9 0.6 1.0
CG2 A:VAL5 4.0 0.5 1.0
CB A:ILE73 4.0 91.9 1.0
N A:TRP72 4.2 0.7 1.0
CA A:ILE73 4.2 90.3 1.0
CG1 A:ILE73 4.3 93.2 1.0
CD1 A:ILE73 4.4 98.2 1.0
O A:ILE73 4.5 91.2 1.0
C A:PRO68 4.6 0.1 1.0
C A:ILE73 4.9 91.8 1.0

Sodium binding site 2 out of 6 in 4hfe

Go back to Sodium Binding Sites List in 4hfe
Sodium binding site 2 out of 6 in the The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant Complexed to Ethanol


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant Complexed to Ethanol within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na406

b:96.7
occ:1.00
 OG1 C:THR226 4.2 74.4 1.0
OG1 D:THR226 4.2 74.6 1.0
OG1 E:THR226 4.3 80.5 1.0
OG1 B:THR226 4.3 76.9 1.0
OG1 A:THR226 4.4 76.5 1.0

Sodium binding site 3 out of 6 in 4hfe

Go back to Sodium Binding Sites List in 4hfe
Sodium binding site 3 out of 6 in the The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant Complexed to Ethanol


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant Complexed to Ethanol within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na403

b:76.2
occ:1.00
 O B:ILE71 2.5 87.2 1.0
O B:PRO68 3.2 96.0 1.0
N B:ILE73 3.4 80.6 1.0
C B:ILE71 3.6 87.0 1.0
CA B:TRP72 3.8 82.6 1.0
C B:TRP72 4.0 85.8 1.0
CG2 B:VAL5 4.1 0.4 1.0
CB B:ILE73 4.1 80.9 1.0
CD1 B:ILE73 4.1 94.1 1.0
N B:TRP72 4.1 83.2 1.0
CA B:ILE73 4.3 78.5 1.0
C B:PRO68 4.3 97.0 1.0
CG1 B:ILE73 4.5 82.5 1.0
O B:ILE73 4.7 81.3 1.0
O B:GLU69 4.8 99.3 1.0
CA B:GLU69 4.8 96.7 1.0
CA B:ILE71 4.8 83.2 1.0
N B:ILE71 4.9 85.1 1.0
C B:GLU69 5.0 98.3 1.0
N B:GLU69 5.0 95.5 1.0

Sodium binding site 4 out of 6 in 4hfe

Go back to Sodium Binding Sites List in 4hfe
Sodium binding site 4 out of 6 in the The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant Complexed to Ethanol


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant Complexed to Ethanol within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Na403

b:79.3
occ:1.00
 O C:ILE71 2.7 97.7 1.0
O C:PRO68 3.2 0.5 1.0
N C:ILE73 3.8 90.6 1.0
C C:ILE71 3.8 98.9 1.0
CA C:TRP72 4.1 92.9 1.0
CG2 C:VAL5 4.1 0.3 1.0
CB C:ILE73 4.2 89.8 1.0
C C:PRO68 4.3 0.8 1.0
C C:TRP72 4.3 96.8 1.0
CG1 C:ILE73 4.4 90.6 1.0
CD1 C:ILE73 4.4 97.6 1.0
N C:TRP72 4.4 94.5 1.0
CA C:ILE73 4.6 87.7 1.0
CA C:GLU69 4.7 0.5 1.0
O C:GLU69 4.7 0.8 1.0
N C:GLU69 4.9 99.9 1.0
C C:GLU69 4.9 0.1 1.0
O C:ILE73 4.9 90.3 1.0

Sodium binding site 5 out of 6 in 4hfe

Go back to Sodium Binding Sites List in 4hfe
Sodium binding site 5 out of 6 in the The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant Complexed to Ethanol


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 5 of The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant Complexed to Ethanol within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Na405

b:0.8
occ:1.00
 O D:ILE71 2.8 1.0 1.0
CG2 D:VAL5 3.4 0.4 1.0
N D:ILE73 3.6 94.1 1.0
CA D:TRP72 3.8 99.3 1.0
C D:ILE71 3.8 0.7 1.0
O D:PRO68 3.9 0.9 1.0
C D:TRP72 4.1 0.4 1.0
N D:TRP72 4.2 0.0 1.0
CB D:ILE73 4.5 93.7 1.0
CB D:VAL5 4.6 0.8 1.0
CA D:ILE73 4.6 91.2 1.0
O D:ILE73 4.6 91.6 1.0
CG1 D:ILE73 4.9 95.6 1.0
CB D:TRP72 4.9 98.3 1.0
O D:GLU69 5.0 0.1 1.0

Sodium binding site 6 out of 6 in 4hfe

Go back to Sodium Binding Sites List in 4hfe
Sodium binding site 6 out of 6 in the The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant Complexed to Ethanol


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 6 of The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant Complexed to Ethanol within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Na403

b:89.5
occ:1.00
 O E:PRO68 2.7 1.0 1.0
O E:ILE71 2.8 0.5 1.0
C E:PRO68 3.8 0.8 1.0
C E:ILE71 4.0 0.3 1.0
N E:ILE73 4.0 96.1 1.0
CD1 E:ILE73 4.1 0.2 1.0
CB E:ILE73 4.2 95.8 1.0
CG1 E:ILE73 4.3 96.9 1.0
CA E:GLU69 4.3 0.6 1.0
N E:GLU69 4.4 0.7 1.0
CA E:TRP72 4.5 0.6 1.0
C E:TRP72 4.6 0.2 1.0
O E:GLU69 4.6 0.8 1.0
C E:GLU69 4.6 0.5 1.0
N E:TRP72 4.7 0.0 1.0
CA E:ILE73 4.7 93.4 1.0
CA E:PRO68 4.8 0.9 1.0
CG2 E:VAL5 4.9 0.9 1.0
N E:ILE71 5.0 0.8 1.0

Reference:

L.Sauguet, R.J.Howard, L.Malherbe, U.S.Lee, P.J.Corringer, R.A.Harris, M.Delarue. Structural Basis For Potentiation By Alcohols and Anaesthetics in A Ligand-Gated Ion Channel. Nat Commun V. 4 1697 2013.
ISSN: ESSN 2041-1723
PubMed: 23591864
DOI: 10.1038/NCOMMS2682
Page generated: Mon Oct 7 15:48:41 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy