Sodium in PDB 4hfb: The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant (Apo)

The structure of The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant (Apo), PDB code: 4hfb 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 / 2.75
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	183.737, 133.512, 161.120, 90.00, 103.28, 90.00
R / Rfree (%)	20.8 / 22.2

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

Chlorine

(Cl)

5 atoms

The binding sites of Sodium atom in the The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant (Apo) (pdb code 4hfb). 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 (Apo), PDB code: 4hfb:
Jump to Sodium binding site number: 1; 2; 3; 4; 5; 6;

Sodium binding site 1 out of 6 in the The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant (Apo)


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 (Apo) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na404 b:90.0 occ:1.00 O A:ILE71 2.7 0.6 1.0 N A:ILE73 3.3 92.5 1.0 O A:PRO68 3.6 0.9 1.0 CA A:TRP72 3.7 98.2 1.0 C A:ILE71 3.8 0.9 1.0 C A:TRP72 3.9 0.4 1.0 CB A:ILE73 4.0 90.9 1.0 N A:TRP72 4.2 99.0 1.0 CA A:ILE73 4.2 89.3 1.0 CG1 A:ILE73 4.3 92.7 1.0 O A:ILE73 4.4 88.2 1.0 CD1 A:ILE73 4.5 0.6 1.0 CG1 A:VAL5 4.7 0.6 1.0 C A:PRO68 4.7 0.7 1.0 C A:ILE73 4.8 89.7 1.0 CB A:TRP72 5.0 97.9 1.0 O A:TRP72 5.0 0.7 1.0

Sodium binding site 2 out of 6 in the The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant (Apo)


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 (Apo) within 5.0Å range: probe atom residue distance (Å) B Occ B:Na404 b:96.0 occ:1.00 O B:ILE71 2.9 89.2 1.0 N B:ILE73 3.1 79.8 1.0 CA B:TRP72 3.7 81.4 1.0 C B:TRP72 3.8 86.1 1.0 O B:PRO68 3.9 92.7 1.0 C B:ILE71 3.9 88.1 1.0 CB B:ILE73 4.0 78.7 1.0 CA B:ILE73 4.0 76.9 1.0 O B:ILE73 4.1 78.7 1.0 N B:TRP72 4.2 82.7 1.0 CD1 B:ILE73 4.4 87.4 1.0 C B:ILE73 4.6 80.7 1.0 CG1 B:ILE73 4.6 80.2 1.0 CG1 B:VAL5 4.8 0.7 1.0 CB B:TRP72 4.9 80.4 1.0 O B:TRP72 4.9 88.7 1.0

Sodium binding site 3 out of 6 in the The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant (Apo)


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 (Apo) within 5.0Å range: probe atom residue distance (Å) B Occ C:Na404 b:90.0 occ:1.00 O C:ILE71 2.5 95.0 1.0 O C:PRO68 3.0 98.6 1.0 C C:ILE71 3.7 94.2 1.0 N C:ILE73 3.7 82.2 1.0 CA C:TRP72 4.1 86.5 1.0 C C:PRO68 4.1 99.8 1.0 CB C:ILE73 4.1 80.5 1.0 CD1 C:ILE73 4.2 90.7 1.0 CG1 C:ILE73 4.2 81.4 1.0 C C:TRP72 4.2 89.1 1.0 N C:TRP72 4.3 88.1 1.0 CA C:ILE73 4.5 78.7 1.0 CG1 C:VAL5 4.6 0.3 1.0 CA C:GLU69 4.7 99.2 1.0 O C:GLU69 4.8 0.0 1.0 N C:GLU69 4.8 98.1 1.0 C C:GLU69 4.9 0.0 1.0 CA C:ILE71 4.9 93.2 1.0 N C:ILE71 4.9 94.9 1.0 O C:ILE73 4.9 84.0 1.0

Sodium binding site 4 out of 6 in the The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant (Apo)


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 (Apo) within 5.0Å range: probe atom residue distance (Å) B Occ D:Na404 b:0.4 occ:1.00 O D:ILE71 2.4 0.5 1.0 O D:PRO68 3.2 0.5 1.0 C D:ILE71 3.6 0.1 1.0 N D:ILE73 3.7 91.7 1.0 CG2 D:VAL5 3.8 0.8 1.0 CA D:TRP72 3.9 97.4 1.0 N D:TRP72 4.2 99.1 1.0 C D:TRP72 4.2 99.7 1.0 CB D:ILE73 4.3 91.6 1.0 C D:PRO68 4.3 0.8 1.0 CG1 D:ILE73 4.4 93.3 1.0 CD1 D:ILE73 4.5 0.2 1.0 CA D:ILE73 4.6 89.0 1.0 O D:GLU69 4.6 0.6 1.0 CA D:GLU69 4.7 0.0 1.0 CA D:ILE71 4.8 0.3 1.0 C D:GLU69 4.9 0.5 1.0 N D:ILE71 4.9 0.3 1.0 CB D:VAL5 4.9 0.8 1.0 O D:ILE73 4.9 87.7 1.0 N D:GLU69 5.0 0.1 1.0

Sodium binding site 5 out of 6 in the The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant (Apo)


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 (Apo) within 5.0Å range: probe atom residue distance (Å) B Occ E:Na404 b:0.0 occ:1.00 O E:ILE71 2.6 93.2 1.0 O E:PRO68 3.1 0.5 1.0 N E:ILE73 3.8 87.8 1.0 C E:ILE71 3.8 94.7 1.0 C E:PRO68 4.1 0.1 1.0 CB E:ILE73 4.2 86.7 1.0 CA E:TRP72 4.2 92.0 1.0 CD1 E:ILE73 4.2 96.0 1.0 CG1 E:ILE73 4.2 87.8 1.0 C E:TRP72 4.3 93.4 1.0 N E:TRP72 4.4 92.2 1.0 CA E:ILE73 4.6 84.8 1.0 CA E:GLU69 4.7 0.1 1.0 CG1 E:VAL5 4.7 0.6 1.0 N E:GLU69 4.8 0.2 1.0 O E:GLU69 4.8 0.9 1.0 C E:GLU69 4.9 0.4 1.0 O E:ILE73 4.9 85.3 1.0

Sodium binding site 6 out of 6 in the The Glic Pentameric Ligand-Gated Ion Channel F14'A Ethanol-Sensitive Mutant (Apo)


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 (Apo) within 5.0Å range: probe atom residue distance (Å) B Occ E:Na405 b:0.5 occ:1.00 OG1 E:THR226 3.8 0.8 1.0 OG1 D:THR226 4.0 0.7 1.0 OG1 A:THR226 4.4 0.9 1.0 OG1 C:THR226 4.7 0.0 1.0 CG2 E:THR226 4.8 0.3 1.0 CG2 D:THR226 4.8 0.5 1.0 OG1 B:THR226 4.9 0.3 1.0 CB E:THR226 4.9 1.0 1.0

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