Chlorine in PDB 8i48: Cryo-Em Structure of Nanodisc (Pe:Ps:Pc) Reconstituted Glic at pH 4 in Closed State

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Cryo-Em Structure of Nanodisc (Pe:Ps:Pc) Reconstituted Glic at pH 4 in Closed State (pdb code 8i48). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 5 binding sites of Chlorine where determined in the Cryo-Em Structure of Nanodisc (Pe:Ps:Pc) Reconstituted Glic at pH 4 in Closed State, PDB code: 8i48:
Jump to Chlorine binding site number: 1; 2; 3; 4; 5;

Chlorine binding site 1 out of 5 in 8i48

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Chlorine binding site 1 out of 5 in the Cryo-Em Structure of Nanodisc (Pe:Ps:Pc) Reconstituted Glic at pH 4 in Closed State


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Cryo-Em Structure of Nanodisc (Pe:Ps:Pc) Reconstituted Glic at pH 4 in Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl401

b:113.9
occ:1.00
 CD A:ARG85 3.5 97.3 1.0
N A:PHE78 3.6 91.1 1.0
N A:ARG85 3.8 113.6 1.0
NH1 A:ARG85 4.0 109.4 1.0
O E:HOH508 4.0 83.1 1.0
CA A:ALA84 4.1 106.2 1.0
CB A:PHE78 4.1 86.4 1.0
CA A:ARG77 4.2 105.8 1.0
NE A:ARG85 4.3 101.9 1.0
CG A:ARG85 4.3 103.8 1.0
CG A:PHE78 4.3 92.5 1.0
C A:ARG77 4.4 98.6 1.0
CB A:ARG85 4.4 104.1 1.0
CA A:PHE78 4.4 88.4 1.0
CB A:ALA84 4.4 96.2 1.0
C A:ALA84 4.5 115.3 1.0
CZ A:ARG85 4.5 103.8 1.0
CD A:ARG77 4.5 119.2 1.0
O A:ILE76 4.5 116.3 1.0
O A:PHE78 4.6 96.2 1.0
CD1 A:PHE78 4.6 93.4 1.0
O A:HOH515 4.7 94.4 1.0
CA A:ARG85 4.7 109.9 1.0
CG2 A:VAL81 4.7 85.1 1.0
CB A:ARG77 4.8 106.0 1.0
CD2 A:PHE78 4.8 93.2 1.0

Chlorine binding site 2 out of 5 in 8i48

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Chlorine binding site 2 out of 5 in the Cryo-Em Structure of Nanodisc (Pe:Ps:Pc) Reconstituted Glic at pH 4 in Closed State


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Cryo-Em Structure of Nanodisc (Pe:Ps:Pc) Reconstituted Glic at pH 4 in Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl401

b:113.9
occ:1.00
 CD C:ARG85 3.5 97.3 1.0
N C:PHE78 3.6 91.1 1.0
N C:ARG85 3.8 113.6 1.0
NH1 C:ARG85 4.0 109.4 1.0
O B:HOH507 4.0 83.1 1.0
CA C:ALA84 4.1 106.2 1.0
CB C:PHE78 4.1 86.4 1.0
CA C:ARG77 4.2 105.8 1.0
NE C:ARG85 4.3 101.9 1.0
CG C:ARG85 4.3 103.8 1.0
CG C:PHE78 4.3 92.5 1.0
C C:ARG77 4.4 98.6 1.0
CB C:ARG85 4.4 104.1 1.0
CA C:PHE78 4.4 88.4 1.0
CB C:ALA84 4.4 96.2 1.0
C C:ALA84 4.5 115.3 1.0
CZ C:ARG85 4.5 103.8 1.0
CD C:ARG77 4.5 119.2 1.0
O C:ILE76 4.5 116.3 1.0
O C:PHE78 4.6 96.2 1.0
CD1 C:PHE78 4.6 93.4 1.0
O C:HOH515 4.7 94.4 1.0
CA C:ARG85 4.7 109.9 1.0
CG2 C:VAL81 4.7 85.1 1.0
CB C:ARG77 4.8 106.0 1.0
CD2 C:PHE78 4.8 93.2 1.0

Chlorine binding site 3 out of 5 in 8i48

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Chlorine binding site 3 out of 5 in the Cryo-Em Structure of Nanodisc (Pe:Ps:Pc) Reconstituted Glic at pH 4 in Closed State


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Cryo-Em Structure of Nanodisc (Pe:Ps:Pc) Reconstituted Glic at pH 4 in Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cl402

b:113.9
occ:1.00
 CD D:ARG85 3.5 97.3 1.0
N D:PHE78 3.6 91.1 1.0
N D:ARG85 3.8 113.6 1.0
NH1 D:ARG85 4.0 109.4 1.0
O C:HOH513 4.0 83.1 1.0
CA D:ALA84 4.1 106.2 1.0
CB D:PHE78 4.1 86.4 1.0
CA D:ARG77 4.2 105.8 1.0
NE D:ARG85 4.3 101.9 1.0
CG D:ARG85 4.3 103.8 1.0
CG D:PHE78 4.3 92.5 1.0
C D:ARG77 4.4 98.6 1.0
CB D:ARG85 4.4 104.1 1.0
CA D:PHE78 4.4 88.4 1.0
CB D:ALA84 4.4 96.2 1.0
C D:ALA84 4.4 115.3 1.0
CZ D:ARG85 4.5 103.8 1.0
CD D:ARG77 4.5 119.2 1.0
O D:ILE76 4.5 116.3 1.0
O D:PHE78 4.6 96.2 1.0
CD1 D:PHE78 4.6 93.4 1.0
O D:HOH515 4.7 94.4 1.0
CA D:ARG85 4.7 109.9 1.0
CG2 D:VAL81 4.7 85.1 1.0
CB D:ARG77 4.8 106.0 1.0
CD2 D:PHE78 4.8 93.2 1.0

Chlorine binding site 4 out of 5 in 8i48

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Chlorine binding site 4 out of 5 in the Cryo-Em Structure of Nanodisc (Pe:Ps:Pc) Reconstituted Glic at pH 4 in Closed State


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Cryo-Em Structure of Nanodisc (Pe:Ps:Pc) Reconstituted Glic at pH 4 in Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl402

b:113.9
occ:1.00
 CD B:ARG85 3.5 97.3 1.0
N B:PHE78 3.6 91.1 1.0
N B:ARG85 3.8 113.6 1.0
NH1 B:ARG85 4.0 109.4 1.0
O A:HOH509 4.0 83.1 1.0
CA B:ALA84 4.1 106.2 1.0
CB B:PHE78 4.1 86.4 1.0
CA B:ARG77 4.2 105.8 1.0
NE B:ARG85 4.3 101.9 1.0
CG B:ARG85 4.3 103.8 1.0
CG B:PHE78 4.3 92.5 1.0
C B:ARG77 4.4 98.6 1.0
CB B:ARG85 4.4 104.1 1.0
CA B:PHE78 4.4 88.4 1.0
CB B:ALA84 4.4 96.2 1.0
C B:ALA84 4.5 115.3 1.0
CZ B:ARG85 4.5 103.8 1.0
CD B:ARG77 4.5 119.2 1.0
O B:ILE76 4.5 116.3 1.0
O B:PHE78 4.6 96.2 1.0
CD1 B:PHE78 4.6 93.4 1.0
O B:HOH515 4.7 94.4 1.0
CA B:ARG85 4.7 109.9 1.0
CG2 B:VAL81 4.7 85.1 1.0
CB B:ARG77 4.8 106.0 1.0
CD2 B:PHE78 4.8 93.2 1.0

Chlorine binding site 5 out of 5 in 8i48

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Chlorine binding site 5 out of 5 in the Cryo-Em Structure of Nanodisc (Pe:Ps:Pc) Reconstituted Glic at pH 4 in Closed State


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 5 of Cryo-Em Structure of Nanodisc (Pe:Ps:Pc) Reconstituted Glic at pH 4 in Closed State within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Cl402

b:113.9
occ:1.00
 CD E:ARG85 3.5 97.3 1.0
N E:PHE78 3.6 91.1 1.0
N E:ARG85 3.8 113.6 1.0
NH1 E:ARG85 4.0 109.4 1.0
O D:HOH509 4.0 83.1 1.0
CA E:ALA84 4.1 106.2 1.0
CB E:PHE78 4.1 86.4 1.0
CA E:ARG77 4.2 105.8 1.0
NE E:ARG85 4.3 101.9 1.0
CG E:ARG85 4.3 103.8 1.0
CG E:PHE78 4.3 92.5 1.0
C E:ARG77 4.4 98.6 1.0
CB E:ARG85 4.4 104.1 1.0
CA E:PHE78 4.4 88.4 1.0
CB E:ALA84 4.4 96.2 1.0
C E:ALA84 4.4 115.3 1.0
CZ E:ARG85 4.5 103.8 1.0
CD E:ARG77 4.5 119.2 1.0
O E:ILE76 4.5 116.3 1.0
O E:PHE78 4.6 96.2 1.0
CD1 E:PHE78 4.6 93.4 1.0
O E:HOH515 4.7 94.4 1.0
CA E:ARG85 4.7 109.9 1.0
CG2 E:VAL81 4.7 85.1 1.0
CB E:ARG77 4.8 106.0 1.0
CD2 E:PHE78 4.8 93.2 1.0

Reference:

N.Bharambe, Z.Li, D.Seiferth, A.M.Balakrishna, P.C.Biggin, S.Basak. Cryo-Em Structures of Prokaryotic Ligand-Gated Ion Channel Glic Provide Insights Into Gating in A Lipid Environment. Nat Commun V. 15 2967 2024.
ISSN: ESSN 2041-1723
PubMed: 38580666
DOI: 10.1038/S41467-024-47370-W
Page generated: Tue Jul 30 10:27:48 2024

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