Chlorine in PDB 6hyw: The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F

The structure of The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F, PDB code: 6hyw was solved by H.D.Hu, M.Delarue, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.80
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	183.000, 132.240, 161.480, 90.00, 103.25, 90.00
R / Rfree (%)	19.2 / 21.2

The structure of The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F also contains other interesting chemical elements:

Sodium

(Na)

6 atoms

The binding sites of Chlorine atom in the The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F (pdb code 6hyw). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 7 binding sites of Chlorine where determined in the The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F, PDB code: 6hyw:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5; 6; 7;

Chlorine binding site 1 out of 7 in the The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl404 b:41.6 occ:1.00 N A:PHE78 3.2 30.2 1.0 NH1 A:ARG85 3.5 33.1 1.0 N A:ARG85 3.7 45.2 1.0 CD2 A:PHE78 3.7 40.2 1.0 CB A:PHE78 3.8 33.8 1.0 CA A:ARG77 3.9 26.7 1.0 CG A:ARG85 4.0 38.5 1.0 CA A:ALA84 4.0 45.6 1.0 CA A:PHE78 4.0 31.4 1.0 C A:ARG77 4.1 31.5 1.0 CG2 A:VAL81 4.1 33.1 1.0 O A:PHE78 4.1 36.6 1.0 CB A:ARG77 4.2 26.7 1.0 CG A:PHE78 4.3 37.2 1.0 CB A:ARG85 4.3 39.5 1.0 C A:ALA84 4.4 50.9 1.0 CD A:ARG85 4.5 43.8 1.0 CB A:ALA84 4.5 46.6 1.0 C A:PHE78 4.6 35.0 1.0 CA A:ARG85 4.6 43.6 1.0 CZ A:ARG85 4.7 49.8 1.0 CG A:ARG77 4.7 39.2 1.0 CE2 A:PHE78 4.8 44.3 1.0

Chlorine binding site 2 out of 7 in the The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl405 b:65.9 occ:1.00 ND2 A:ASN139 3.5 79.5 1.0 OD1 A:ASN139 3.5 62.3 1.0 N A:LEU180 3.5 41.6 1.0 CG A:ASN139 3.9 74.3 1.0 CA A:ARG179 3.9 41.4 1.0 CB A:LEU180 4.0 43.3 1.0 C A:ARG179 4.2 43.9 1.0 CD A:ARG179 4.4 50.6 1.0 CA A:LEU180 4.4 41.5 1.0 CB A:SER134 4.4 41.8 1.0 O A:ASP178 4.5 50.6 1.0 CB A:ARG179 4.7 40.2 1.0 N A:ARG179 4.9 43.2 1.0 CG A:ARG179 4.9 46.2 1.0 OG A:SER134 4.9 53.2 1.0

Chlorine binding site 3 out of 7 in the The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl406 b:67.4 occ:1.00 N A:ALA175 3.5 34.6 1.0 CB A:ALA175 3.9 35.5 1.0 CA A:PHE174 4.2 33.4 1.0 CA A:ALA175 4.3 34.1 1.0 C A:PHE174 4.3 37.4 1.0 CB A:PHE174 4.5 34.1 1.0 O A:ALA175 4.7 39.1 1.0

Chlorine binding site 4 out of 7 in the The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl404 b:54.5 occ:1.00 N B:PHE78 3.3 29.0 1.0 CD2 B:PHE78 3.3 41.3 1.0 NH1 B:ARG85 3.4 35.7 1.0 N B:ARG85 3.5 49.2 1.0 CG B:ARG85 3.6 43.4 1.0 CB B:PHE78 3.7 33.1 1.0 CB B:ARG85 3.9 44.3 1.0 CG B:PHE78 4.0 36.8 1.0 CA B:PHE78 4.0 30.2 1.0 CG2 B:VAL81 4.1 28.8 1.0 CD B:ARG85 4.1 41.9 1.0 CA B:ALA84 4.1 52.5 1.0 CA B:ARG77 4.1 26.0 1.0 C B:ARG77 4.2 29.4 1.0 O B:PHE78 4.3 33.9 1.0 CA B:ARG85 4.3 47.2 1.0 C B:ALA84 4.3 56.1 1.0 CE2 B:PHE78 4.4 45.2 1.0 CZ B:ARG85 4.4 52.5 1.0 CB B:ARG77 4.5 23.2 1.0 NE B:ARG85 4.7 40.3 1.0 C B:PHE78 4.7 32.9 1.0 CB B:ALA84 4.8 54.1 1.0 CG1 B:VAL81 4.9 27.8 1.0 O B:ASN83 5.0 52.5 1.0

Chlorine binding site 5 out of 7 in the The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F within 5.0Å range: probe atom residue distance (Å) B Occ C:Cl403 b:46.1 occ:1.00 N C:PHE78 3.3 36.4 1.0 NH1 C:ARG85 3.6 31.0 1.0 N C:ARG85 3.6 48.7 1.0 CD2 C:PHE78 3.7 46.4 1.0 CB C:PHE78 3.8 38.5 1.0 CG C:ARG85 3.9 46.8 1.0 CA C:ALA84 4.0 48.8 1.0 CA C:ARG77 4.0 33.6 1.0 CG2 C:VAL81 4.0 35.1 1.0 CA C:PHE78 4.1 36.1 1.0 C C:ARG77 4.1 38.5 1.0 O C:PHE78 4.1 39.2 1.0 CB C:ARG77 4.2 33.0 1.0 CB C:ARG85 4.2 46.0 1.0 CG C:PHE78 4.3 42.1 1.0 C C:ALA84 4.4 53.2 1.0 CD C:ARG85 4.5 46.4 1.0 CA C:ARG85 4.6 47.7 1.0 CB C:ALA84 4.6 50.3 1.0 C C:PHE78 4.6 38.8 1.0 CG C:ARG77 4.7 48.6 1.0 CZ C:ARG85 4.7 49.2 1.0 CE2 C:PHE78 4.8 50.4 1.0

Chlorine binding site 6 out of 7 in the The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 6 of The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F within 5.0Å range: probe atom residue distance (Å) B Occ D:Cl403 b:47.9 occ:1.00 O D:HOH530 3.2 32.0 1.0 N D:PHE78 3.2 31.5 1.0 NH1 D:ARG85 3.4 29.7 1.0 CD2 D:PHE78 3.7 41.0 1.0 N D:ARG85 3.7 46.8 1.0 CB D:PHE78 3.8 34.0 1.0 CG D:ARG85 3.9 35.4 1.0 CA D:ARG77 3.9 29.1 1.0 C D:ARG77 4.0 34.3 1.0 CA D:PHE78 4.0 31.5 1.0 CA D:ALA84 4.1 49.4 1.0 CB D:ARG77 4.2 27.7 1.0 CG2 D:VAL81 4.2 35.3 1.0 O D:PHE78 4.2 36.3 1.0 CG D:PHE78 4.2 37.5 1.0 CB D:ARG85 4.2 39.0 1.0 CD D:ARG85 4.4 39.0 1.0 C D:ALA84 4.5 53.7 1.0 CZ D:ARG85 4.5 48.9 1.0 CG D:ARG77 4.6 33.0 1.0 CA D:ARG85 4.6 44.5 1.0 C D:PHE78 4.6 34.7 1.0 CB D:ALA84 4.6 50.9 1.0 CE2 D:PHE78 4.7 44.3 1.0 NE D:ARG85 4.9 42.7 1.0

Chlorine binding site 7 out of 7 in the The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 7 of The Glic Pentameric Ligand-Gated Ion Channel Mutant Y119F within 5.0Å range: probe atom residue distance (Å) B Occ E:Cl403 b:52.7 occ:1.00 N E:PHE78 3.2 35.1 1.0 NH1 E:ARG85 3.4 32.1 1.0 CD2 E:PHE78 3.5 46.3 1.0 N E:ARG85 3.6 50.2 1.0 CG E:ARG85 3.8 42.2 1.0 CB E:PHE78 3.8 38.5 1.0 CA E:ARG77 4.0 34.4 1.0 CA E:PHE78 4.1 35.9 1.0 CA E:ALA84 4.1 51.3 1.0 CB E:ARG85 4.1 44.2 1.0 CG2 E:VAL81 4.1 37.0 1.0 C E:ARG77 4.1 37.8 1.0 CG E:PHE78 4.1 42.1 1.0 CD E:ARG85 4.2 37.0 1.0 O E:PHE78 4.3 38.2 1.0 CB E:ARG77 4.3 32.5 1.0 C E:ALA84 4.4 56.1 1.0 CA E:ARG85 4.5 47.8 1.0 CZ E:ARG85 4.5 46.9 1.0 CE2 E:PHE78 4.6 50.1 1.0 CB E:ALA84 4.7 52.4 1.0 C E:PHE78 4.7 38.0 1.0 CG E:ARG77 4.8 45.9 1.0 NE E:ARG85 4.8 33.5 1.0

H.Hu, K.Ataka, A.Menny, Z.Fourati, L.Sauguet, P.J.Corringer, P.Koehl, J.Heberle, M.Delarue. Electrostatics, Proton Sensor, and Networks Governing the Gating Transition in Glic, A Proton-Gated Pentameric Ion Channel. Proc. Natl. Acad. Sci. V. 115 12172 2018U.S.A..
ISSN: ESSN 1091-6490
PubMed: 30541892
DOI: 10.1073/PNAS.1813378116