Chlorine in PDB 6f0z: Glic Mutant D88N
Protein crystallography data
The structure of Glic Mutant D88N, PDB code: 6f0z
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 /
2.50
|
Space group
|
C 1 2 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
181.930,
133.600,
160.220,
90.00,
101.96,
90.00
|
R / Rfree (%)
|
21.7 /
22.6
|
Other elements in 6f0z:
The structure of Glic Mutant D88N also contains other interesting chemical elements:
Chlorine Binding Sites:
The binding sites of Chlorine atom in the Glic Mutant D88N
(pdb code 6f0z). This binding sites where shown within
5.0 Angstroms radius around Chlorine atom.
In total 7 binding sites of Chlorine where determined in the
Glic Mutant D88N, PDB code: 6f0z:
Jump to Chlorine binding site number:
1;
2;
3;
4;
5;
6;
7;
Chlorine binding site 1 out
of 7 in 6f0z
Go back to
Chlorine Binding Sites List in 6f0z
Chlorine binding site 1 out
of 7 in the Glic Mutant D88N
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 1 of Glic Mutant D88N within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl401
b:66.8
occ:1.00
|
N
|
A:PHE78
|
3.4
|
58.3
|
1.0
|
N
|
A:ARG85
|
3.6
|
64.4
|
1.0
|
CD1
|
A:PHE78
|
3.6
|
73.0
|
1.0
|
CD
|
A:ARG85
|
3.8
|
62.4
|
1.0
|
CB
|
A:PHE78
|
3.8
|
62.5
|
1.0
|
NH1
|
A:ARG85
|
4.0
|
60.1
|
1.0
|
CG2
|
A:VAL81
|
4.0
|
61.1
|
1.0
|
CB
|
A:ARG85
|
4.1
|
60.0
|
1.0
|
CA
|
A:ARG77
|
4.1
|
55.8
|
1.0
|
CA
|
A:ALA84
|
4.1
|
64.3
|
1.0
|
CA
|
A:PHE78
|
4.2
|
59.1
|
1.0
|
C
|
A:ARG77
|
4.2
|
59.2
|
1.0
|
CG
|
A:PHE78
|
4.2
|
67.0
|
1.0
|
CG
|
A:ARG85
|
4.2
|
59.5
|
1.0
|
O
|
A:PHE78
|
4.3
|
60.1
|
1.0
|
CB
|
A:ARG77
|
4.4
|
52.6
|
1.0
|
C
|
A:ALA84
|
4.4
|
69.6
|
1.0
|
CA
|
A:ARG85
|
4.5
|
62.7
|
1.0
|
CB
|
A:ALA84
|
4.6
|
65.2
|
1.0
|
CE1
|
A:PHE78
|
4.7
|
75.1
|
1.0
|
NE
|
A:ARG85
|
4.7
|
63.4
|
1.0
|
C
|
A:PHE78
|
4.8
|
60.4
|
1.0
|
CG
|
A:ARG77
|
4.8
|
58.4
|
1.0
|
CZ
|
A:ARG85
|
4.8
|
71.1
|
1.0
|
|
Chlorine binding site 2 out
of 7 in 6f0z
Go back to
Chlorine Binding Sites List in 6f0z
Chlorine binding site 2 out
of 7 in the Glic Mutant D88N
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 2 of Glic Mutant D88N within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl402
b:87.4
occ:1.00
|
ND2
|
A:ASN139
|
3.2
|
0.5
|
1.0
|
N
|
A:LEU180
|
3.3
|
64.8
|
1.0
|
CA
|
A:ARG179
|
3.8
|
62.2
|
1.0
|
CB
|
A:LEU180
|
3.9
|
66.5
|
1.0
|
CG
|
A:ASN139
|
3.9
|
92.2
|
1.0
|
OD1
|
A:ASN139
|
4.0
|
75.4
|
1.0
|
C
|
A:ARG179
|
4.0
|
66.2
|
1.0
|
CA
|
A:LEU180
|
4.2
|
64.4
|
1.0
|
CD
|
A:ARG179
|
4.4
|
77.2
|
1.0
|
CB
|
A:SER134
|
4.4
|
66.2
|
1.0
|
CB
|
A:ARG179
|
4.5
|
57.1
|
1.0
|
O
|
A:ASP178
|
4.6
|
70.5
|
1.0
|
N
|
A:ARG179
|
4.7
|
64.0
|
1.0
|
CG
|
A:ARG179
|
4.9
|
62.5
|
1.0
|
OG
|
A:SER134
|
4.9
|
74.8
|
1.0
|
|
Chlorine binding site 3 out
of 7 in 6f0z
Go back to
Chlorine Binding Sites List in 6f0z
Chlorine binding site 3 out
of 7 in the Glic Mutant D88N
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 3 of Glic Mutant D88N within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl403
b:84.1
occ:1.00
|
N
|
A:ALA175
|
3.6
|
56.5
|
1.0
|
CB
|
A:ALA175
|
4.0
|
57.9
|
1.0
|
CA
|
A:PHE174
|
4.1
|
58.8
|
1.0
|
C
|
A:PHE174
|
4.3
|
60.1
|
1.0
|
CA
|
A:ALA175
|
4.4
|
56.0
|
1.0
|
CB
|
A:PHE174
|
4.5
|
60.0
|
1.0
|
|
Chlorine binding site 4 out
of 7 in 6f0z
Go back to
Chlorine Binding Sites List in 6f0z
Chlorine binding site 4 out
of 7 in the Glic Mutant D88N
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 4 of Glic Mutant D88N within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl402
b:62.4
occ:1.00
|
N
|
B:PHE78
|
3.3
|
55.7
|
1.0
|
CD2
|
B:PHE78
|
3.6
|
68.1
|
1.0
|
N
|
B:ARG85
|
3.7
|
67.0
|
1.0
|
CD
|
B:ARG85
|
3.8
|
64.3
|
1.0
|
CB
|
B:PHE78
|
3.8
|
58.9
|
1.0
|
NH1
|
B:ARG85
|
3.9
|
54.3
|
1.0
|
CG2
|
B:VAL81
|
4.0
|
56.7
|
1.0
|
CA
|
B:ARG77
|
4.0
|
53.8
|
1.0
|
CB
|
B:ARG85
|
4.1
|
62.2
|
1.0
|
CA
|
B:PHE78
|
4.1
|
56.4
|
1.0
|
C
|
B:ARG77
|
4.1
|
57.9
|
1.0
|
CG
|
B:PHE78
|
4.2
|
63.0
|
1.0
|
CG
|
B:ARG85
|
4.2
|
63.2
|
1.0
|
CA
|
B:ALA84
|
4.3
|
71.4
|
1.0
|
O
|
B:PHE78
|
4.3
|
60.3
|
1.0
|
CB
|
B:ARG77
|
4.4
|
49.5
|
1.0
|
C
|
B:ALA84
|
4.5
|
73.7
|
1.0
|
CA
|
B:ARG85
|
4.5
|
65.1
|
1.0
|
CE2
|
B:PHE78
|
4.6
|
72.0
|
1.0
|
NE
|
B:ARG85
|
4.7
|
61.9
|
1.0
|
C
|
B:PHE78
|
4.7
|
60.4
|
1.0
|
CZ
|
B:ARG85
|
4.7
|
71.5
|
1.0
|
CB
|
B:ALA84
|
4.8
|
72.5
|
1.0
|
CG
|
B:ARG77
|
4.8
|
58.3
|
1.0
|
|
Chlorine binding site 5 out
of 7 in 6f0z
Go back to
Chlorine Binding Sites List in 6f0z
Chlorine binding site 5 out
of 7 in the Glic Mutant D88N
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 5 of Glic Mutant D88N within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Cl403
b:63.7
occ:1.00
|
N
|
C:PHE78
|
3.4
|
61.6
|
1.0
|
N
|
C:ARG85
|
3.6
|
65.5
|
1.0
|
CD2
|
C:PHE78
|
3.6
|
71.3
|
1.0
|
CD
|
C:ARG85
|
3.8
|
64.8
|
1.0
|
CB
|
C:PHE78
|
3.8
|
63.8
|
1.0
|
NH1
|
C:ARG85
|
4.0
|
61.2
|
1.0
|
CG2
|
C:VAL81
|
4.0
|
60.8
|
1.0
|
CB
|
C:ARG85
|
4.0
|
62.6
|
1.0
|
CA
|
C:ARG77
|
4.1
|
58.5
|
1.0
|
CA
|
C:PHE78
|
4.2
|
61.8
|
1.0
|
CA
|
C:ALA84
|
4.2
|
64.7
|
1.0
|
C
|
C:ARG77
|
4.2
|
63.8
|
1.0
|
CG
|
C:ARG85
|
4.2
|
60.9
|
1.0
|
CG
|
C:PHE78
|
4.2
|
67.2
|
1.0
|
O
|
C:PHE78
|
4.3
|
63.9
|
1.0
|
CB
|
C:ARG77
|
4.4
|
56.0
|
1.0
|
C
|
C:ALA84
|
4.4
|
69.3
|
1.0
|
CA
|
C:ARG85
|
4.4
|
64.3
|
1.0
|
CE2
|
C:PHE78
|
4.7
|
75.1
|
1.0
|
CB
|
C:ALA84
|
4.7
|
65.3
|
1.0
|
NE
|
C:ARG85
|
4.7
|
62.0
|
1.0
|
CG
|
C:ARG77
|
4.8
|
63.6
|
1.0
|
C
|
C:PHE78
|
4.8
|
64.4
|
1.0
|
CZ
|
C:ARG85
|
4.8
|
74.9
|
1.0
|
|
Chlorine binding site 6 out
of 7 in 6f0z
Go back to
Chlorine Binding Sites List in 6f0z
Chlorine binding site 6 out
of 7 in the Glic Mutant D88N
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 6 of Glic Mutant D88N within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Cl402
b:62.4
occ:1.00
|
N
|
D:PHE78
|
3.3
|
56.3
|
1.0
|
CD1
|
D:PHE78
|
3.6
|
69.4
|
1.0
|
N
|
D:ARG85
|
3.6
|
66.2
|
1.0
|
CD
|
D:ARG85
|
3.8
|
63.7
|
1.0
|
CB
|
D:PHE78
|
3.8
|
59.7
|
1.0
|
NH1
|
D:ARG85
|
3.9
|
57.1
|
1.0
|
CA
|
D:ARG77
|
4.0
|
51.8
|
1.0
|
CG2
|
D:VAL81
|
4.0
|
57.2
|
1.0
|
CB
|
D:ARG85
|
4.1
|
62.0
|
1.0
|
CA
|
D:PHE78
|
4.1
|
56.6
|
1.0
|
C
|
D:ARG77
|
4.2
|
57.7
|
1.0
|
CA
|
D:ALA84
|
4.2
|
67.0
|
1.0
|
CG
|
D:PHE78
|
4.2
|
63.8
|
1.0
|
CG
|
D:ARG85
|
4.2
|
61.1
|
1.0
|
O
|
D:PHE78
|
4.3
|
58.6
|
1.0
|
CB
|
D:ARG77
|
4.3
|
46.7
|
1.0
|
C
|
D:ALA84
|
4.4
|
71.3
|
1.0
|
CA
|
D:ARG85
|
4.5
|
64.8
|
1.0
|
CB
|
D:ALA84
|
4.6
|
68.2
|
1.0
|
CE1
|
D:PHE78
|
4.6
|
71.1
|
1.0
|
CG
|
D:ARG77
|
4.7
|
46.4
|
1.0
|
NE
|
D:ARG85
|
4.7
|
65.8
|
1.0
|
C
|
D:PHE78
|
4.7
|
58.6
|
1.0
|
CZ
|
D:ARG85
|
4.8
|
74.9
|
1.0
|
|
Chlorine binding site 7 out
of 7 in 6f0z
Go back to
Chlorine Binding Sites List in 6f0z
Chlorine binding site 7 out
of 7 in the Glic Mutant D88N
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 7 of Glic Mutant D88N within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Cl402
b:64.4
occ:1.00
|
N
|
E:PHE78
|
3.3
|
61.7
|
1.0
|
CD1
|
E:PHE78
|
3.5
|
71.9
|
1.0
|
N
|
E:ARG85
|
3.6
|
69.8
|
1.0
|
CD
|
E:ARG85
|
3.8
|
65.5
|
1.0
|
CB
|
E:PHE78
|
3.8
|
63.5
|
1.0
|
NH1
|
E:ARG85
|
4.0
|
66.8
|
1.0
|
CA
|
E:ARG77
|
4.0
|
61.2
|
1.0
|
CG2
|
E:VAL81
|
4.0
|
56.3
|
1.0
|
CB
|
E:ARG85
|
4.1
|
65.7
|
1.0
|
CA
|
E:PHE78
|
4.1
|
61.6
|
1.0
|
C
|
E:ARG77
|
4.1
|
65.5
|
1.0
|
CG
|
E:PHE78
|
4.1
|
66.3
|
1.0
|
CG
|
E:ARG85
|
4.2
|
67.7
|
1.0
|
CA
|
E:ALA84
|
4.2
|
72.9
|
1.0
|
O
|
E:PHE78
|
4.3
|
64.4
|
1.0
|
CB
|
E:ARG77
|
4.4
|
58.9
|
1.0
|
C
|
E:ALA84
|
4.5
|
75.7
|
1.0
|
CA
|
E:ARG85
|
4.5
|
67.9
|
1.0
|
CE1
|
E:PHE78
|
4.6
|
73.3
|
1.0
|
C
|
E:PHE78
|
4.7
|
64.3
|
1.0
|
CG
|
E:ARG77
|
4.7
|
70.3
|
1.0
|
NE
|
E:ARG85
|
4.7
|
60.8
|
1.0
|
CB
|
E:ALA84
|
4.8
|
74.0
|
1.0
|
CZ
|
E:ARG85
|
4.8
|
79.5
|
1.0
|
|
Reference:
A.Nemecz,
H.Hu,
Z.Fourati,
C.Van Renterghem,
M.Delarue,
P.J.Corringer.
Full Mutational Mapping of Titratable Residues Helps to Identify Proton-Sensors Involved in the Control of Channel Gating in the Gloeobacter Violaceus Pentameric Ligand-Gated Ion Channel. Plos Biol. V. 15 04470 2017.
ISSN: ESSN 1545-7885
PubMed: 29281623
DOI: 10.1371/JOURNAL.PBIO.2004470
Page generated: Sat Jul 27 22:47:44 2024
|