Chlorine in PDB 3g3g: Crystal Structure of the GLUR6 Ligand Binding Domain Dimer K665R Mutant with Glutamate and Nacl at 1.3 Angstrom Resolution
Protein crystallography data
The structure of Crystal Structure of the GLUR6 Ligand Binding Domain Dimer K665R Mutant with Glutamate and Nacl at 1.3 Angstrom Resolution, PDB code: 3g3g
was solved by
C.Chaudhry,
M.L.Mayer,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
29.26 /
1.30
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
50.990,
113.532,
52.022,
90.00,
115.24,
90.00
|
R / Rfree (%)
|
14.6 /
16.8
|
Other elements in 3g3g:
The structure of Crystal Structure of the GLUR6 Ligand Binding Domain Dimer K665R Mutant with Glutamate and Nacl at 1.3 Angstrom Resolution also contains other interesting chemical elements:
Chlorine Binding Sites:
The binding sites of Chlorine atom in the Crystal Structure of the GLUR6 Ligand Binding Domain Dimer K665R Mutant with Glutamate and Nacl at 1.3 Angstrom Resolution
(pdb code 3g3g). This binding sites where shown within
5.0 Angstroms radius around Chlorine atom.
In total 3 binding sites of Chlorine where determined in the
Crystal Structure of the GLUR6 Ligand Binding Domain Dimer K665R Mutant with Glutamate and Nacl at 1.3 Angstrom Resolution, PDB code: 3g3g:
Jump to Chlorine binding site number:
1;
2;
3;
Chlorine binding site 1 out
of 3 in 3g3g
Go back to
Chlorine Binding Sites List in 3g3g
Chlorine binding site 1 out
of 3 in the Crystal Structure of the GLUR6 Ligand Binding Domain Dimer K665R Mutant with Glutamate and Nacl at 1.3 Angstrom Resolution
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 1 of Crystal Structure of the GLUR6 Ligand Binding Domain Dimer K665R Mutant with Glutamate and Nacl at 1.3 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl261
b:27.0
occ:0.78
|
H
|
A:ASP125
|
2.2
|
20.7
|
1.0
|
HB2
|
A:SER123
|
2.7
|
26.2
|
1.0
|
O
|
A:HOH670
|
2.8
|
37.6
|
1.0
|
O
|
A:HOH309
|
2.9
|
17.6
|
1.0
|
N
|
A:ASP125
|
3.0
|
17.3
|
1.0
|
HB2
|
A:ASP125
|
3.0
|
26.3
|
1.0
|
HB3
|
A:ALA124
|
3.0
|
17.8
|
1.0
|
HB3
|
A:ASP125
|
3.2
|
26.3
|
1.0
|
H
|
A:ALA124
|
3.3
|
17.6
|
1.0
|
CB
|
A:ASP125
|
3.5
|
21.9
|
1.0
|
CB
|
A:SER123
|
3.6
|
21.8
|
1.0
|
HG
|
A:SER123
|
3.6
|
27.9
|
1.0
|
N
|
A:ALA124
|
3.6
|
14.6
|
1.0
|
HG21
|
A:THR154
|
3.7
|
22.8
|
1.0
|
OG
|
A:SER123
|
3.7
|
23.3
|
1.0
|
CA
|
A:ASP125
|
3.8
|
18.8
|
1.0
|
CB
|
A:ALA124
|
3.8
|
14.9
|
1.0
|
O
|
A:HOH288
|
3.9
|
15.8
|
1.0
|
C
|
A:ALA124
|
3.9
|
15.1
|
1.0
|
CA
|
A:ALA124
|
3.9
|
13.8
|
1.0
|
HA
|
A:ASP125
|
4.2
|
22.6
|
1.0
|
HB3
|
A:SER123
|
4.2
|
26.2
|
1.0
|
C
|
A:SER123
|
4.3
|
14.1
|
1.0
|
HB2
|
A:ALA124
|
4.4
|
17.8
|
1.0
|
HB1
|
A:ALA124
|
4.4
|
17.8
|
1.0
|
CA
|
A:SER123
|
4.5
|
17.5
|
1.0
|
HE1
|
A:TYR155
|
4.5
|
16.4
|
1.0
|
O
|
A:HOH319
|
4.6
|
27.5
|
1.0
|
HA
|
A:SER123
|
4.6
|
20.9
|
1.0
|
CG2
|
A:THR154
|
4.6
|
19.0
|
1.0
|
H
|
A:ASP126
|
4.8
|
20.3
|
1.0
|
OH
|
A:TYR155
|
4.8
|
14.8
|
1.0
|
CG
|
A:ASP125
|
4.9
|
36.2
|
1.0
|
HA
|
A:ALA124
|
4.9
|
16.5
|
1.0
|
HG23
|
A:THR154
|
5.0
|
22.8
|
1.0
|
O
|
A:ALA124
|
5.0
|
15.5
|
1.0
|
O
|
A:HOH446
|
5.0
|
25.9
|
1.0
|
|
Chlorine binding site 2 out
of 3 in 3g3g
Go back to
Chlorine Binding Sites List in 3g3g
Chlorine binding site 2 out
of 3 in the Crystal Structure of the GLUR6 Ligand Binding Domain Dimer K665R Mutant with Glutamate and Nacl at 1.3 Angstrom Resolution
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 2 of Crystal Structure of the GLUR6 Ligand Binding Domain Dimer K665R Mutant with Glutamate and Nacl at 1.3 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl261
b:9.7
occ:0.99
|
HZ2
|
A:LYS104
|
2.4
|
11.3
|
1.0
|
HZ2
|
B:LYS104
|
2.4
|
11.5
|
1.0
|
HH11
|
B:ARG228
|
2.7
|
19.3
|
0.6
|
HH11
|
A:ARG228
|
2.8
|
19.1
|
0.6
|
O
|
B:HOH357
|
3.1
|
17.8
|
1.0
|
O
|
A:HOH417
|
3.1
|
16.8
|
1.0
|
NZ
|
A:LYS104
|
3.3
|
9.4
|
1.0
|
NZ
|
B:LYS104
|
3.3
|
9.6
|
1.0
|
HG3
|
A:LYS104
|
3.4
|
9.6
|
1.0
|
HZ1
|
B:LYS104
|
3.4
|
11.5
|
1.0
|
HG3
|
B:LYS104
|
3.4
|
10.8
|
1.0
|
HZ1
|
A:LYS104
|
3.4
|
11.3
|
1.0
|
NH1
|
B:ARG228
|
3.5
|
16.1
|
0.6
|
HD3
|
A:ARG228
|
3.5
|
16.9
|
0.6
|
O
|
A:HOH674
|
3.6
|
27.2
|
0.8
|
NH1
|
A:ARG228
|
3.6
|
15.9
|
0.6
|
HD3
|
B:ARG228
|
3.6
|
11.9
|
0.6
|
HG2
|
A:LYS104
|
3.6
|
9.6
|
1.0
|
HG2
|
B:LYS104
|
3.6
|
10.8
|
1.0
|
HH12
|
B:ARG228
|
3.7
|
19.3
|
0.6
|
O
|
B:HOH673
|
3.7
|
24.5
|
0.9
|
NH2
|
B:ARG228
|
3.7
|
22.9
|
0.4
|
HH21
|
B:ARG228
|
3.7
|
27.4
|
0.4
|
HH12
|
A:ARG228
|
3.8
|
19.1
|
0.6
|
HD3
|
A:ARG228
|
3.8
|
16.8
|
0.4
|
HZ3
|
A:LYS104
|
3.8
|
11.3
|
1.0
|
HH22
|
B:ARG228
|
3.8
|
27.4
|
0.4
|
HE3
|
B:LYS104
|
3.9
|
12.7
|
1.0
|
HZ3
|
B:LYS104
|
3.9
|
11.5
|
1.0
|
CG
|
A:LYS104
|
3.9
|
8.0
|
1.0
|
CZ
|
B:ARG228
|
4.0
|
18.4
|
0.4
|
CG
|
B:LYS104
|
4.0
|
9.1
|
1.0
|
HE3
|
A:LYS104
|
4.0
|
13.9
|
1.0
|
HG1
|
B:THR232
|
4.1
|
9.1
|
1.0
|
HG1
|
A:THR232
|
4.1
|
10.4
|
1.0
|
CE
|
B:LYS104
|
4.1
|
10.6
|
1.0
|
NH1
|
A:ARG228
|
4.1
|
20.4
|
0.4
|
HH11
|
A:ARG228
|
4.1
|
24.5
|
0.4
|
CZ
|
A:ARG228
|
4.1
|
19.9
|
0.4
|
HE
|
B:ARG228
|
4.2
|
21.7
|
0.4
|
CE
|
A:LYS104
|
4.2
|
11.6
|
1.0
|
NE
|
B:ARG228
|
4.3
|
18.1
|
0.4
|
O
|
B:PHE102
|
4.3
|
7.0
|
1.0
|
O
|
A:PHE102
|
4.3
|
7.7
|
1.0
|
HD2
|
A:ARG228
|
4.3
|
16.9
|
0.6
|
CD
|
A:ARG228
|
4.3
|
14.1
|
0.6
|
NE
|
A:ARG228
|
4.3
|
20.6
|
0.4
|
HH12
|
A:ARG228
|
4.3
|
24.5
|
0.4
|
HD2
|
B:ARG228
|
4.3
|
11.9
|
0.6
|
CD
|
B:ARG228
|
4.4
|
9.9
|
0.6
|
NH1
|
B:ARG228
|
4.5
|
20.1
|
0.4
|
CD
|
A:ARG228
|
4.6
|
14.0
|
0.4
|
HH12
|
B:ARG228
|
4.6
|
24.1
|
0.4
|
CZ
|
B:ARG228
|
4.6
|
13.7
|
0.6
|
CD
|
B:LYS104
|
4.6
|
9.1
|
1.0
|
CD
|
A:LYS104
|
4.6
|
10.1
|
1.0
|
CZ
|
A:ARG228
|
4.7
|
13.1
|
0.6
|
H
|
A:LYS104
|
4.7
|
8.4
|
1.0
|
NH2
|
A:ARG228
|
4.7
|
22.6
|
0.4
|
H
|
B:LYS104
|
4.7
|
7.6
|
1.0
|
HG2
|
B:ARG228
|
4.8
|
13.1
|
0.4
|
HE
|
A:ARG228
|
4.8
|
24.7
|
0.4
|
OD1
|
B:ASP229
|
4.8
|
13.0
|
1.0
|
OD1
|
A:ASP229
|
4.8
|
14.5
|
1.0
|
OG1
|
B:THR232
|
4.8
|
7.6
|
1.0
|
OG1
|
A:THR232
|
4.8
|
8.7
|
1.0
|
N
|
B:LYS104
|
4.9
|
6.4
|
1.0
|
N
|
A:LYS104
|
4.9
|
7.0
|
1.0
|
HH22
|
A:ARG228
|
4.9
|
27.1
|
0.4
|
HG21
|
A:THR232
|
4.9
|
11.0
|
1.0
|
O
|
A:HOH617
|
4.9
|
8.9
|
0.5
|
O
|
B:HOH524
|
4.9
|
8.4
|
0.5
|
HG21
|
B:THR232
|
4.9
|
10.2
|
1.0
|
NE
|
B:ARG228
|
4.9
|
9.9
|
0.6
|
HH11
|
B:ARG228
|
4.9
|
24.1
|
0.4
|
NE
|
A:ARG228
|
4.9
|
11.2
|
0.6
|
HE2
|
B:LYS104
|
4.9
|
12.7
|
1.0
|
HA
|
B:LYS104
|
5.0
|
8.3
|
1.0
|
HA
|
A:LYS104
|
5.0
|
9.1
|
1.0
|
HD2
|
B:LYS104
|
5.0
|
10.9
|
1.0
|
|
Chlorine binding site 3 out
of 3 in 3g3g
Go back to
Chlorine Binding Sites List in 3g3g
Chlorine binding site 3 out
of 3 in the Crystal Structure of the GLUR6 Ligand Binding Domain Dimer K665R Mutant with Glutamate and Nacl at 1.3 Angstrom Resolution
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 3 of Crystal Structure of the GLUR6 Ligand Binding Domain Dimer K665R Mutant with Glutamate and Nacl at 1.3 Angstrom Resolution within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl262
b:13.8
occ:0.85
|
H
|
B:GLY118
|
2.6
|
14.9
|
1.0
|
HG2
|
B:LYS117
|
2.9
|
17.4
|
1.0
|
HA
|
B:LYS117
|
3.1
|
15.1
|
1.0
|
HG21
|
B:THR206
|
3.2
|
16.3
|
1.0
|
HB3
|
B:LYS117
|
3.4
|
16.0
|
1.0
|
N
|
B:GLY118
|
3.5
|
12.4
|
1.0
|
CG
|
B:LYS117
|
3.7
|
14.5
|
1.0
|
CA
|
B:LYS117
|
3.8
|
12.6
|
1.0
|
CB
|
B:LYS117
|
3.8
|
13.3
|
1.0
|
CG2
|
B:THR206
|
4.1
|
13.6
|
1.0
|
C
|
B:LYS117
|
4.2
|
14.3
|
1.0
|
HB
|
B:THR206
|
4.2
|
14.9
|
1.0
|
HA2
|
B:GLY118
|
4.2
|
17.4
|
1.0
|
HD3
|
B:LYS117
|
4.2
|
22.8
|
1.0
|
HG3
|
B:LYS117
|
4.4
|
17.4
|
1.0
|
HG22
|
B:THR206
|
4.4
|
16.3
|
1.0
|
CA
|
B:GLY118
|
4.4
|
14.5
|
1.0
|
HE2
|
B:LYS117
|
4.4
|
22.7
|
1.0
|
CD
|
B:LYS117
|
4.5
|
19.0
|
1.0
|
H
|
B:THR119
|
4.5
|
14.2
|
1.0
|
CB
|
B:THR206
|
4.6
|
12.4
|
1.0
|
HG22
|
B:THR119
|
4.6
|
18.1
|
1.0
|
OG1
|
B:THR206
|
4.6
|
16.2
|
1.0
|
HB2
|
B:LYS117
|
4.7
|
16.0
|
1.0
|
HG23
|
B:THR206
|
4.8
|
16.3
|
1.0
|
|
Reference:
C.Chaudhry,
M.C.Weston,
P.Schuck,
C.Rosenmund,
M.L.Mayer.
Stability of Ligand-Binding Domain Dimer Assembly Controls Kainate Receptor Desensitization. Embo J. V. 28 1518 2009.
ISSN: ISSN 0261-4189
PubMed: 19339989
DOI: 10.1038/EMBOJ.2009.86
Page generated: Sat Jul 20 19:56:20 2024
|