Chlorine in PDB 6hyz: The Glic Pentameric Ligand-Gated Ion Channel Mutant K248C

The structure of The Glic Pentameric Ligand-Gated Ion Channel Mutant K248C, PDB code: 6hyz 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 / 3.05
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	181.220, 132.939, 159.951, 90.00, 101.98, 90.00
R / Rfree (%)	22.6 / 23.4

The structure of The Glic Pentameric Ligand-Gated Ion Channel Mutant K248C 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 K248C (pdb code 6hyz). 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 K248C, PDB code: 6hyz:
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 K248C


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 K248C within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl405 b:91.1 occ:1.00 O A:HOH517 2.9 61.3 1.0 N A:PHE78 3.2 79.8 1.0 N A:ARG85 3.5 84.8 1.0 CG A:ARG85 3.6 86.4 1.0 NH1 A:ARG85 3.6 91.3 1.0 CB A:PHE78 3.7 80.9 1.0 CD2 A:PHE78 3.8 85.7 1.0 CB A:ARG85 3.9 82.0 1.0 CA A:PHE78 3.9 79.3 1.0 CD A:ARG85 4.0 86.0 1.0 CA A:ALA84 4.0 85.4 1.0 CA A:ARG77 4.0 79.8 1.0 C A:ARG77 4.1 83.6 1.0 O A:PHE78 4.1 81.6 1.0 CG A:PHE78 4.2 83.1 1.0 CG2 A:VAL81 4.2 78.0 1.0 C A:ALA84 4.2 88.9 1.0 CA A:ARG85 4.3 84.2 1.0 CB A:ARG77 4.4 80.3 1.0 CB A:ALA84 4.4 86.9 1.0 C A:PHE78 4.5 81.4 1.0 CZ A:ARG85 4.5 0.5 1.0 NE A:ARG85 4.7 90.2 1.0 CG A:ARG77 4.7 89.1 1.0 CE2 A:PHE78 4.9 88.8 1.0

Chlorine binding site 2 out of 7 in the The Glic Pentameric Ligand-Gated Ion Channel Mutant K248C


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 K248C within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl406 b:0.8 occ:1.00 OD1 A:ASN139 3.3 0.9 1.0 N A:LEU180 3.7 92.4 1.0 CA A:ARG179 4.1 92.7 1.0 CG A:ASN139 4.2 0.3 1.0 CD A:ARG179 4.3 0.3 1.0 ND2 A:ASN139 4.3 0.4 1.0 C A:ARG179 4.4 95.7 1.0 CB A:LEU180 4.4 92.2 1.0 O A:ASP178 4.6 99.5 1.0 CA A:LEU180 4.6 91.6 1.0 CB A:ARG179 4.9 91.3 1.0 O A:VAL135 5.0 0.2 1.0

Chlorine binding site 3 out of 7 in the The Glic Pentameric Ligand-Gated Ion Channel Mutant K248C


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 K248C within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl407 b:0.4 occ:1.00 N A:ALA175 3.5 90.5 1.0 CA A:PHE174 3.8 89.0 1.0 CB A:PHE174 3.9 89.6 1.0 C A:PHE174 4.2 92.6 1.0 CB A:ALA175 4.2 93.3 1.0 CA A:ALA175 4.5 90.7 1.0 O A:ASN173 4.8 95.8 1.0 O A:ALA175 4.9 93.4 1.0

Chlorine binding site 4 out of 7 in the The Glic Pentameric Ligand-Gated Ion Channel Mutant K248C


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 K248C within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl405 b:89.8 occ:1.00 N B:PHE78 3.1 77.0 1.0 N B:ARG85 3.6 90.0 1.0 CB B:PHE78 3.6 78.0 1.0 NH1 B:ARG85 3.8 89.9 1.0 CD2 B:PHE78 3.8 82.0 1.0 CA B:PHE78 3.8 76.5 1.0 CG B:ARG85 3.9 91.5 1.0 O B:PHE78 3.9 80.4 1.0 CA B:ALA84 4.0 91.9 1.0 CG2 B:VAL81 4.0 83.1 1.0 CA B:ARG77 4.0 76.8 1.0 C B:ARG77 4.1 80.2 1.0 CB B:ARG85 4.1 86.1 1.0 CG B:PHE78 4.2 79.5 1.0 CD B:ARG85 4.2 94.8 1.0 C B:ALA84 4.3 95.0 1.0 CB B:ARG77 4.3 78.0 1.0 C B:PHE78 4.4 80.2 1.0 CB B:ALA84 4.5 93.8 1.0 CA B:ARG85 4.5 88.9 1.0 CG B:ARG77 4.7 88.8 1.0 CZ B:ARG85 4.7 0.6 1.0 NE B:ARG85 4.9 97.1 1.0 CE2 B:PHE78 5.0 84.9 1.0

Chlorine binding site 5 out of 7 in the The Glic Pentameric Ligand-Gated Ion Channel Mutant K248C


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 K248C within 5.0Å range: probe atom residue distance (Å) B Occ C:Cl405 b:86.1 occ:1.00 N C:PHE78 3.2 83.4 1.0 N C:ARG85 3.5 92.0 1.0 CB C:PHE78 3.7 83.9 1.0 CG C:ARG85 3.8 92.8 1.0 NH1 C:ARG85 3.8 92.6 1.0 CD2 C:PHE78 3.9 88.2 1.0 CA C:ALA84 3.9 93.2 1.0 CA C:PHE78 4.0 82.4 1.0 O C:PHE78 4.0 85.3 1.0 CG2 C:VAL81 4.1 84.0 1.0 CB C:ARG85 4.1 88.4 1.0 CA C:ARG77 4.1 83.6 1.0 C C:ARG77 4.1 87.2 1.0 CD C:ARG85 4.2 95.2 1.0 C C:ALA84 4.2 96.7 1.0 CG C:PHE78 4.3 85.7 1.0 CB C:ALA84 4.4 95.1 1.0 CB C:ARG77 4.4 84.7 1.0 CA C:ARG85 4.4 91.0 1.0 C C:PHE78 4.5 84.9 1.0 CG C:ARG77 4.7 96.3 1.0 CZ C:ARG85 4.8 0.7 1.0 NE C:ARG85 4.9 95.9 1.0

Chlorine binding site 6 out of 7 in the The Glic Pentameric Ligand-Gated Ion Channel Mutant K248C


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 K248C within 5.0Å range: probe atom residue distance (Å) B Occ D:Cl405 b:88.3 occ:1.00 N D:PHE78 3.2 78.5 1.0 N D:ARG85 3.5 93.0 1.0 CA D:ALA84 3.8 92.4 1.0 O D:PHE78 3.9 79.8 1.0 CB D:PHE78 3.9 79.3 1.0 NH1 D:ARG85 4.0 97.8 1.0 CG D:ARG85 4.0 96.2 1.0 CA D:ARG77 4.0 80.0 1.0 CA D:PHE78 4.0 77.5 1.0 CB D:ALA84 4.1 94.3 1.0 C D:ARG77 4.1 82.8 1.0 CB D:ARG77 4.2 80.8 1.0 CG2 D:VAL81 4.2 81.4 1.0 C D:ALA84 4.2 96.8 1.0 CD2 D:PHE78 4.2 84.3 1.0 CB D:ARG85 4.3 90.8 1.0 CD D:ARG85 4.4 98.4 1.0 C D:PHE78 4.5 79.7 1.0 CG D:ARG77 4.5 91.0 1.0 CG D:PHE78 4.5 81.4 1.0 CA D:ARG85 4.6 92.8 1.0 N D:ALA84 4.9 92.5 1.0 CZ D:ARG85 4.9 0.5 1.0

Chlorine binding site 7 out of 7 in the The Glic Pentameric Ligand-Gated Ion Channel Mutant K248C


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 K248C within 5.0Å range: probe atom residue distance (Å) B Occ E:Cl405 b:97.1 occ:1.00 N E:PHE78 3.2 87.9 1.0 N E:ARG85 3.5 95.0 1.0 NH1 E:ARG85 3.8 97.0 1.0 CB E:PHE78 3.8 88.6 1.0 CA E:ALA84 3.8 96.3 1.0 CG E:ARG85 3.9 96.6 1.0 CA E:PHE78 4.0 87.1 1.0 CD2 E:PHE78 4.0 93.1 1.0 O E:PHE78 4.0 91.3 1.0 CA E:ARG77 4.0 88.5 1.0 C E:ARG77 4.1 91.6 1.0 CG2 E:VAL81 4.1 91.1 1.0 CB E:ARG85 4.2 91.2 1.0 C E:ALA84 4.2 99.7 1.0 CD E:ARG85 4.2 97.1 1.0 CB E:ALA84 4.2 98.5 1.0 CB E:ARG77 4.3 90.5 1.0 CG E:PHE78 4.4 90.3 1.0 CA E:ARG85 4.5 94.0 1.0 C E:PHE78 4.5 90.6 1.0 CG E:ARG77 4.6 0.1 1.0 CZ E:ARG85 4.8 0.8 1.0 NE E:ARG85 4.9 99.6 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