Chlorine in PDB 8fpy: Lbd Conformation 2 (LBDCONF2) of GLUA2 Flip Q Isoform of Ampa Receptor in Complex with Gain-of-Function Tarp Gamma-2, with 500MM Nacl, 330UM Ctz, and 100MM Glutamate (Open-NA610)
Chlorine Binding Sites:
The binding sites of Chlorine atom in the Lbd Conformation 2 (LBDCONF2) of GLUA2 Flip Q Isoform of Ampa Receptor in Complex with Gain-of-Function Tarp Gamma-2, with 500MM Nacl, 330UM Ctz, and 100MM Glutamate (Open-NA610)
(pdb code 8fpy). This binding sites where shown within
5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the
Lbd Conformation 2 (LBDCONF2) of GLUA2 Flip Q Isoform of Ampa Receptor in Complex with Gain-of-Function Tarp Gamma-2, with 500MM Nacl, 330UM Ctz, and 100MM Glutamate (Open-NA610), PDB code: 8fpy:
Jump to Chlorine binding site number:
1;
2;
3;
4;
Chlorine binding site 1 out
of 4 in 8fpy
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Chlorine Binding Sites List in 8fpy
Chlorine binding site 1 out
of 4 in the Lbd Conformation 2 (LBDCONF2) of GLUA2 Flip Q Isoform of Ampa Receptor in Complex with Gain-of-Function Tarp Gamma-2, with 500MM Nacl, 330UM Ctz, and 100MM Glutamate (Open-NA610)
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 1 of Lbd Conformation 2 (LBDCONF2) of GLUA2 Flip Q Isoform of Ampa Receptor in Complex with Gain-of-Function Tarp Gamma-2, with 500MM Nacl, 330UM Ctz, and 100MM Glutamate (Open-NA610) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl1302
b:76.3
occ:1.00
|
CL
|
A:CYZ1302
|
0.0
|
76.3
|
1.0
|
C13
|
A:CYZ1302
|
1.8
|
30.1
|
1.0
|
C12
|
A:CYZ1302
|
2.7
|
26.5
|
1.0
|
C14
|
A:CYZ1302
|
2.8
|
27.1
|
1.0
|
O4
|
A:CYZ1302
|
2.9
|
49.1
|
1.0
|
S2
|
A:CYZ1302
|
3.2
|
50.6
|
1.0
|
N
|
A:ASP760
|
3.2
|
37.0
|
1.0
|
O
|
A:HOH1401
|
3.3
|
25.3
|
1.0
|
CB
|
A:LEU759
|
3.5
|
30.2
|
1.0
|
CA
|
A:ASP760
|
3.5
|
40.2
|
1.0
|
N3
|
A:CYZ1302
|
3.5
|
40.3
|
1.0
|
C
|
A:LEU759
|
3.6
|
38.3
|
1.0
|
CB
|
A:ASP760
|
3.8
|
46.6
|
1.0
|
C11
|
A:CYZ1302
|
4.0
|
25.3
|
1.0
|
O
|
A:LEU759
|
4.0
|
47.0
|
1.0
|
C10
|
A:CYZ1302
|
4.1
|
29.7
|
1.0
|
CA
|
A:LEU759
|
4.1
|
29.1
|
1.0
|
C9
|
A:CYZ1302
|
4.6
|
31.5
|
1.0
|
O
|
A:PHE495
|
4.6
|
39.5
|
1.0
|
OD2
|
A:ASP760
|
4.7
|
58.8
|
1.0
|
CG
|
A:LEU759
|
4.7
|
35.0
|
1.0
|
O3
|
A:CYZ1302
|
4.8
|
41.0
|
1.0
|
CD1
|
A:LEU759
|
4.8
|
31.7
|
1.0
|
CG
|
A:ASP760
|
4.8
|
54.4
|
1.0
|
N
|
A:LEU759
|
4.9
|
34.9
|
1.0
|
C
|
A:ASP760
|
5.0
|
44.5
|
1.0
|
|
Chlorine binding site 2 out
of 4 in 8fpy
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Chlorine Binding Sites List in 8fpy
Chlorine binding site 2 out
of 4 in the Lbd Conformation 2 (LBDCONF2) of GLUA2 Flip Q Isoform of Ampa Receptor in Complex with Gain-of-Function Tarp Gamma-2, with 500MM Nacl, 330UM Ctz, and 100MM Glutamate (Open-NA610)
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 2 of Lbd Conformation 2 (LBDCONF2) of GLUA2 Flip Q Isoform of Ampa Receptor in Complex with Gain-of-Function Tarp Gamma-2, with 500MM Nacl, 330UM Ctz, and 100MM Glutamate (Open-NA610) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl1302
b:84.0
occ:1.00
|
CL
|
B:CYZ1302
|
0.0
|
84.0
|
1.0
|
C13
|
B:CYZ1302
|
1.8
|
43.7
|
1.0
|
C12
|
B:CYZ1302
|
2.7
|
43.1
|
1.0
|
C14
|
B:CYZ1302
|
2.8
|
38.0
|
1.0
|
O4
|
B:CYZ1302
|
2.9
|
37.4
|
1.0
|
S2
|
B:CYZ1302
|
3.2
|
55.4
|
1.0
|
N
|
B:ASP760
|
3.3
|
41.2
|
1.0
|
CB
|
B:LEU759
|
3.6
|
45.6
|
1.0
|
N3
|
B:CYZ1302
|
3.6
|
48.9
|
1.0
|
CA
|
B:ASP760
|
3.6
|
48.2
|
1.0
|
C
|
B:LEU759
|
3.7
|
41.9
|
1.0
|
CB
|
B:ASP760
|
3.8
|
55.8
|
1.0
|
O
|
B:HOH1401
|
3.9
|
32.5
|
1.0
|
OG
|
C:SER729
|
4.0
|
46.4
|
1.0
|
C11
|
B:CYZ1302
|
4.0
|
41.3
|
1.0
|
C10
|
B:CYZ1302
|
4.1
|
38.0
|
1.0
|
O
|
B:LEU759
|
4.2
|
51.3
|
1.0
|
CA
|
B:LEU759
|
4.3
|
44.8
|
1.0
|
C9
|
B:CYZ1302
|
4.6
|
37.9
|
1.0
|
CB
|
C:SER729
|
4.6
|
39.5
|
1.0
|
O
|
B:PHE495
|
4.6
|
47.0
|
1.0
|
CD1
|
B:LEU759
|
4.8
|
38.3
|
1.0
|
O3
|
B:CYZ1302
|
4.8
|
51.8
|
1.0
|
CG
|
B:LEU759
|
4.8
|
39.4
|
1.0
|
CG
|
B:ASP760
|
5.0
|
64.1
|
1.0
|
|
Chlorine binding site 3 out
of 4 in 8fpy
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Chlorine Binding Sites List in 8fpy
Chlorine binding site 3 out
of 4 in the Lbd Conformation 2 (LBDCONF2) of GLUA2 Flip Q Isoform of Ampa Receptor in Complex with Gain-of-Function Tarp Gamma-2, with 500MM Nacl, 330UM Ctz, and 100MM Glutamate (Open-NA610)
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 3 of Lbd Conformation 2 (LBDCONF2) of GLUA2 Flip Q Isoform of Ampa Receptor in Complex with Gain-of-Function Tarp Gamma-2, with 500MM Nacl, 330UM Ctz, and 100MM Glutamate (Open-NA610) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Cl1302
b:72.5
occ:1.00
|
CL
|
C:CYZ1302
|
0.0
|
72.5
|
1.0
|
C13
|
C:CYZ1302
|
1.8
|
27.1
|
1.0
|
C12
|
C:CYZ1302
|
2.7
|
28.4
|
1.0
|
C14
|
C:CYZ1302
|
2.8
|
25.1
|
1.0
|
O4
|
C:CYZ1302
|
2.9
|
50.3
|
1.0
|
S2
|
C:CYZ1302
|
3.2
|
54.5
|
1.0
|
N
|
C:ASP760
|
3.2
|
43.9
|
1.0
|
O
|
C:HOH1401
|
3.3
|
21.3
|
1.0
|
CB
|
C:LEU759
|
3.5
|
34.1
|
1.0
|
C
|
C:LEU759
|
3.5
|
37.7
|
1.0
|
CA
|
C:ASP760
|
3.5
|
42.7
|
1.0
|
N3
|
C:CYZ1302
|
3.5
|
37.5
|
1.0
|
CB
|
C:ASP760
|
3.9
|
50.0
|
1.0
|
O
|
C:LEU759
|
4.0
|
39.8
|
1.0
|
C11
|
C:CYZ1302
|
4.0
|
26.3
|
1.0
|
C10
|
C:CYZ1302
|
4.1
|
29.3
|
1.0
|
CA
|
C:LEU759
|
4.1
|
25.9
|
1.0
|
C9
|
C:CYZ1302
|
4.6
|
29.3
|
1.0
|
OD2
|
C:ASP760
|
4.6
|
57.6
|
1.0
|
O
|
C:PHE495
|
4.6
|
38.4
|
1.0
|
CG
|
C:LEU759
|
4.8
|
34.4
|
1.0
|
O3
|
C:CYZ1302
|
4.8
|
41.6
|
1.0
|
CG
|
C:ASP760
|
4.8
|
54.8
|
1.0
|
CD1
|
C:LEU759
|
4.8
|
28.2
|
1.0
|
N
|
C:LEU759
|
5.0
|
32.3
|
1.0
|
C
|
C:ASP760
|
5.0
|
42.4
|
1.0
|
|
Chlorine binding site 4 out
of 4 in 8fpy
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Chlorine Binding Sites List in 8fpy
Chlorine binding site 4 out
of 4 in the Lbd Conformation 2 (LBDCONF2) of GLUA2 Flip Q Isoform of Ampa Receptor in Complex with Gain-of-Function Tarp Gamma-2, with 500MM Nacl, 330UM Ctz, and 100MM Glutamate (Open-NA610)
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 4 of Lbd Conformation 2 (LBDCONF2) of GLUA2 Flip Q Isoform of Ampa Receptor in Complex with Gain-of-Function Tarp Gamma-2, with 500MM Nacl, 330UM Ctz, and 100MM Glutamate (Open-NA610) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Cl1302
b:86.5
occ:1.00
|
CL
|
D:CYZ1302
|
0.0
|
86.5
|
1.0
|
C13
|
D:CYZ1302
|
1.8
|
46.1
|
1.0
|
C12
|
D:CYZ1302
|
2.7
|
44.7
|
1.0
|
C14
|
D:CYZ1302
|
2.8
|
41.2
|
1.0
|
O4
|
D:CYZ1302
|
2.9
|
41.0
|
1.0
|
S2
|
D:CYZ1302
|
3.2
|
58.4
|
1.0
|
N
|
D:ASP760
|
3.3
|
45.0
|
1.0
|
CB
|
D:ASP760
|
3.4
|
61.0
|
1.0
|
CA
|
D:ASP760
|
3.5
|
56.4
|
1.0
|
N3
|
D:CYZ1302
|
3.6
|
51.1
|
1.0
|
CB
|
D:LEU759
|
3.6
|
49.7
|
1.0
|
C
|
D:LEU759
|
3.8
|
45.3
|
1.0
|
O
|
D:HOH1401
|
4.0
|
39.9
|
1.0
|
C11
|
D:CYZ1302
|
4.0
|
42.4
|
1.0
|
C10
|
D:CYZ1302
|
4.1
|
40.1
|
1.0
|
CA
|
D:LEU759
|
4.3
|
49.7
|
1.0
|
O
|
D:LEU759
|
4.4
|
56.1
|
1.0
|
O
|
D:PHE495
|
4.5
|
45.4
|
1.0
|
C9
|
D:CYZ1302
|
4.6
|
39.8
|
1.0
|
OG
|
A:SER729
|
4.6
|
46.8
|
1.0
|
CG
|
D:ASP760
|
4.6
|
66.9
|
1.0
|
CB
|
A:SER729
|
4.7
|
39.0
|
1.0
|
O3
|
D:CYZ1302
|
4.8
|
50.9
|
1.0
|
CD1
|
D:LEU759
|
4.8
|
41.0
|
1.0
|
CG
|
D:LEU759
|
4.8
|
46.5
|
1.0
|
|
Reference:
T.Nakagawa,
X.T.Wang,
F.J.Miguez-Cabello,
D.Bowie.
The Open Gate of the Ampa Receptor Forms A CA2+ Binding Site Critical in Regulating Ion Transport Nat.Struct.Mol.Biol. 2024.
ISSN: ESSN 1545-9985
DOI: 10.1038/S41594-024-01228-3
Page generated: Tue Jul 30 09:41:34 2024
|