Thallium in PDB 4p6h: Tl+-Bound Inward-Facing State (Bound Conformation) of the Glutamate Transporter Homologue Gltph
Protein crystallography data
The structure of Tl+-Bound Inward-Facing State (Bound Conformation) of the Glutamate Transporter Homologue Gltph, PDB code: 4p6h
was solved by
G.Verdon,
O.Boudker,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
15.00 /
4.08
|
Space group
|
C 2 2 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
110.830,
200.434,
206.397,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
25.8 /
29.6
|
Other elements in 4p6h:
The structure of Tl+-Bound Inward-Facing State (Bound Conformation) of the Glutamate Transporter Homologue Gltph also contains other interesting chemical elements:
Thallium Binding Sites:
The binding sites of Thallium atom in the Tl+-Bound Inward-Facing State (Bound Conformation) of the Glutamate Transporter Homologue Gltph
(pdb code 4p6h). This binding sites where shown within
5.0 Angstroms radius around Thallium atom.
In total 6 binding sites of Thallium where determined in the
Tl+-Bound Inward-Facing State (Bound Conformation) of the Glutamate Transporter Homologue Gltph, PDB code: 4p6h:
Jump to Thallium binding site number:
1;
2;
3;
4;
5;
6;
Thallium binding site 1 out
of 6 in 4p6h
Go back to
Thallium Binding Sites List in 4p6h
Thallium binding site 1 out
of 6 in the Tl+-Bound Inward-Facing State (Bound Conformation) of the Glutamate Transporter Homologue Gltph
Mono view
Stereo pair view
|
A full contact list of Thallium with other atoms in the Tl binding
site number 1 of Tl+-Bound Inward-Facing State (Bound Conformation) of the Glutamate Transporter Homologue Gltph within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Tl502
b:91.5
occ:0.80
|
O
|
A:GLY306
|
2.3
|
0.3
|
1.0
|
OD2
|
A:ASP405
|
2.6
|
0.4
|
1.0
|
O
|
A:ASN310
|
2.7
|
0.1
|
1.0
|
OD1
|
A:ASP405
|
2.9
|
0.9
|
1.0
|
CG
|
A:ASP405
|
3.1
|
0.9
|
1.0
|
O
|
A:ASN401
|
3.1
|
0.9
|
1.0
|
C
|
A:GLY306
|
3.4
|
0.6
|
1.0
|
C
|
A:ASN401
|
3.5
|
0.4
|
1.0
|
CB
|
A:ASN401
|
3.6
|
0.1
|
1.0
|
CG
|
A:MET311
|
3.7
|
99.8
|
1.0
|
O
|
A:ILE309
|
3.7
|
0.4
|
1.0
|
C
|
A:ASN310
|
3.7
|
0.6
|
1.0
|
CA
|
A:ALA307
|
3.8
|
0.1
|
1.0
|
CA
|
A:ASN401
|
3.9
|
0.7
|
1.0
|
C
|
A:ALA307
|
3.9
|
0.5
|
1.0
|
O
|
A:ALA307
|
3.9
|
0.1
|
1.0
|
OG
|
A:SER278
|
4.0
|
0.7
|
1.0
|
N
|
A:ALA307
|
4.0
|
0.2
|
1.0
|
CA
|
A:MET311
|
4.1
|
0.2
|
1.0
|
N
|
A:MET311
|
4.3
|
0.2
|
1.0
|
N
|
A:VAL402
|
4.4
|
0.4
|
1.0
|
ND2
|
A:ASN310
|
4.4
|
1.0
|
1.0
|
CB
|
A:MET311
|
4.5
|
99.8
|
1.0
|
CG
|
A:ASN401
|
4.6
|
0.6
|
1.0
|
N
|
A:THR308
|
4.6
|
0.3
|
1.0
|
CA
|
A:GLY306
|
4.6
|
0.7
|
1.0
|
CB
|
A:ASP405
|
4.7
|
0.3
|
1.0
|
C
|
A:ILE309
|
4.7
|
0.0
|
1.0
|
CA
|
A:ASN310
|
4.9
|
0.2
|
1.0
|
CB
|
A:ASN310
|
4.9
|
0.4
|
1.0
|
SD
|
A:MET311
|
4.9
|
97.2
|
1.0
|
CA
|
A:VAL402
|
4.9
|
0.6
|
1.0
|
|
Thallium binding site 2 out
of 6 in 4p6h
Go back to
Thallium Binding Sites List in 4p6h
Thallium binding site 2 out
of 6 in the Tl+-Bound Inward-Facing State (Bound Conformation) of the Glutamate Transporter Homologue Gltph
Mono view
Stereo pair view
|
A full contact list of Thallium with other atoms in the Tl binding
site number 2 of Tl+-Bound Inward-Facing State (Bound Conformation) of the Glutamate Transporter Homologue Gltph within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Tl503
b:0.6
occ:0.40
|
O
|
A:THR352
|
2.0
|
0.2
|
1.0
|
O
|
A:THR308
|
2.1
|
0.2
|
1.0
|
O
|
A:SER349
|
2.3
|
0.7
|
1.0
|
C
|
A:THR308
|
2.9
|
0.6
|
1.0
|
C
|
A:THR352
|
3.0
|
0.5
|
1.0
|
C
|
A:SER349
|
3.3
|
0.3
|
1.0
|
N
|
A:THR352
|
3.3
|
99.9
|
1.0
|
C
|
A:GLY351
|
3.5
|
0.9
|
1.0
|
CA
|
A:THR352
|
3.5
|
99.1
|
1.0
|
O
|
A:GLY351
|
3.5
|
0.5
|
1.0
|
C
|
A:ILE350
|
3.6
|
0.1
|
1.0
|
N
|
A:ILE309
|
3.7
|
0.8
|
1.0
|
O
|
A:ILE350
|
3.7
|
0.0
|
1.0
|
CA
|
A:THR308
|
3.8
|
0.6
|
1.0
|
CA
|
A:ILE350
|
3.8
|
0.5
|
1.0
|
CB
|
A:THR352
|
3.8
|
97.3
|
1.0
|
CA
|
A:ILE309
|
3.9
|
0.7
|
1.0
|
N
|
A:GLY351
|
3.9
|
0.0
|
1.0
|
N
|
A:ILE350
|
3.9
|
0.1
|
1.0
|
SD
|
A:MET311
|
4.1
|
97.2
|
1.0
|
N
|
A:ALA353
|
4.1
|
0.3
|
1.0
|
CB
|
A:THR308
|
4.3
|
0.1
|
1.0
|
CA
|
A:GLY351
|
4.3
|
0.8
|
1.0
|
CA
|
A:SER349
|
4.3
|
99.3
|
1.0
|
CG
|
A:MET311
|
4.4
|
99.8
|
1.0
|
OG1
|
A:THR352
|
4.4
|
96.3
|
1.0
|
CA
|
A:ALA353
|
4.6
|
0.0
|
1.0
|
C
|
A:ILE309
|
4.9
|
0.0
|
1.0
|
OG
|
A:SER349
|
4.9
|
0.7
|
1.0
|
CB
|
A:ILE309
|
4.9
|
0.7
|
1.0
|
|
Thallium binding site 3 out
of 6 in 4p6h
Go back to
Thallium Binding Sites List in 4p6h
Thallium binding site 3 out
of 6 in the Tl+-Bound Inward-Facing State (Bound Conformation) of the Glutamate Transporter Homologue Gltph
Mono view
Stereo pair view
|
A full contact list of Thallium with other atoms in the Tl binding
site number 3 of Tl+-Bound Inward-Facing State (Bound Conformation) of the Glutamate Transporter Homologue Gltph within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Tl502
b:85.8
occ:0.80
|
O
|
B:GLY306
|
2.3
|
0.6
|
1.0
|
OD2
|
B:ASP405
|
2.6
|
0.6
|
1.0
|
O
|
B:ASN310
|
2.7
|
99.2
|
1.0
|
OD1
|
B:ASP405
|
2.9
|
0.3
|
1.0
|
CG
|
B:ASP405
|
3.1
|
0.6
|
1.0
|
O
|
B:ASN401
|
3.1
|
0.6
|
1.0
|
C
|
B:GLY306
|
3.4
|
0.3
|
1.0
|
C
|
B:ASN401
|
3.5
|
0.9
|
1.0
|
CB
|
B:ASN401
|
3.6
|
0.0
|
1.0
|
CG
|
B:MET311
|
3.7
|
87.6
|
1.0
|
O
|
B:ILE309
|
3.7
|
96.4
|
1.0
|
C
|
B:ASN310
|
3.7
|
95.7
|
1.0
|
CA
|
B:ALA307
|
3.8
|
0.3
|
1.0
|
C
|
B:ALA307
|
3.9
|
99.2
|
1.0
|
CA
|
B:ASN401
|
3.9
|
0.1
|
1.0
|
O
|
B:ALA307
|
3.9
|
96.8
|
1.0
|
OG
|
B:SER278
|
4.0
|
0.7
|
1.0
|
N
|
B:ALA307
|
4.0
|
0.8
|
1.0
|
CA
|
B:MET311
|
4.1
|
90.9
|
1.0
|
N
|
B:MET311
|
4.3
|
91.2
|
1.0
|
N
|
B:VAL402
|
4.4
|
1.0
|
1.0
|
ND2
|
B:ASN310
|
4.4
|
0.1
|
1.0
|
CB
|
B:MET311
|
4.5
|
86.6
|
1.0
|
CG
|
B:ASN401
|
4.6
|
98.4
|
1.0
|
N
|
B:THR308
|
4.6
|
97.3
|
1.0
|
CA
|
B:GLY306
|
4.6
|
1.0
|
1.0
|
CB
|
B:ASP405
|
4.7
|
0.7
|
1.0
|
C
|
B:ILE309
|
4.7
|
93.2
|
1.0
|
CA
|
B:ASN310
|
4.9
|
96.8
|
1.0
|
CB
|
B:ASN310
|
4.9
|
0.9
|
1.0
|
SD
|
B:MET311
|
4.9
|
84.1
|
1.0
|
CA
|
B:VAL402
|
4.9
|
0.8
|
1.0
|
|
Thallium binding site 4 out
of 6 in 4p6h
Go back to
Thallium Binding Sites List in 4p6h
Thallium binding site 4 out
of 6 in the Tl+-Bound Inward-Facing State (Bound Conformation) of the Glutamate Transporter Homologue Gltph
Mono view
Stereo pair view
|
A full contact list of Thallium with other atoms in the Tl binding
site number 4 of Tl+-Bound Inward-Facing State (Bound Conformation) of the Glutamate Transporter Homologue Gltph within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Tl503
b:100.0
occ:0.40
|
O
|
B:THR352
|
2.0
|
83.2
|
1.0
|
O
|
B:THR308
|
2.1
|
86.5
|
1.0
|
O
|
B:SER349
|
2.3
|
79.9
|
1.0
|
C
|
B:THR308
|
2.9
|
89.6
|
1.0
|
C
|
B:THR352
|
3.0
|
81.8
|
1.0
|
C
|
B:SER349
|
3.3
|
77.5
|
1.0
|
N
|
B:THR352
|
3.3
|
75.9
|
1.0
|
C
|
B:GLY351
|
3.5
|
76.6
|
1.0
|
CA
|
B:THR352
|
3.5
|
77.8
|
1.0
|
O
|
B:GLY351
|
3.5
|
79.0
|
1.0
|
C
|
B:ILE350
|
3.6
|
77.7
|
1.0
|
N
|
B:ILE309
|
3.7
|
91.4
|
1.0
|
O
|
B:ILE350
|
3.7
|
79.7
|
1.0
|
CA
|
B:THR308
|
3.8
|
92.3
|
1.0
|
CA
|
B:ILE350
|
3.8
|
78.6
|
1.0
|
CB
|
B:THR352
|
3.8
|
77.7
|
1.0
|
CA
|
B:ILE309
|
3.9
|
90.1
|
1.0
|
N
|
B:GLY351
|
3.9
|
75.1
|
1.0
|
N
|
B:ILE350
|
3.9
|
76.8
|
1.0
|
SD
|
B:MET311
|
4.1
|
84.1
|
1.0
|
N
|
B:ALA353
|
4.1
|
84.5
|
1.0
|
CB
|
B:THR308
|
4.3
|
93.2
|
1.0
|
CA
|
B:GLY351
|
4.3
|
75.0
|
1.0
|
CA
|
B:SER349
|
4.3
|
76.0
|
1.0
|
CG
|
B:MET311
|
4.4
|
87.6
|
1.0
|
OG1
|
B:THR352
|
4.4
|
75.0
|
1.0
|
CA
|
B:ALA353
|
4.6
|
89.4
|
1.0
|
C
|
B:ILE309
|
4.9
|
93.2
|
1.0
|
OG
|
B:SER349
|
4.9
|
82.7
|
1.0
|
CB
|
B:ILE309
|
4.9
|
91.7
|
1.0
|
|
Thallium binding site 5 out
of 6 in 4p6h
Go back to
Thallium Binding Sites List in 4p6h
Thallium binding site 5 out
of 6 in the Tl+-Bound Inward-Facing State (Bound Conformation) of the Glutamate Transporter Homologue Gltph
Mono view
Stereo pair view
|
A full contact list of Thallium with other atoms in the Tl binding
site number 5 of Tl+-Bound Inward-Facing State (Bound Conformation) of the Glutamate Transporter Homologue Gltph within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Tl502
b:0.3
occ:0.80
|
O
|
C:GLY306
|
2.3
|
0.4
|
1.0
|
OD2
|
C:ASP405
|
2.6
|
0.5
|
1.0
|
O
|
C:ASN310
|
2.7
|
0.5
|
1.0
|
OD1
|
C:ASP405
|
2.9
|
0.9
|
1.0
|
CG
|
C:ASP405
|
3.1
|
0.1
|
1.0
|
O
|
C:ASN401
|
3.1
|
0.2
|
1.0
|
C
|
C:GLY306
|
3.4
|
0.2
|
1.0
|
C
|
C:ASN401
|
3.5
|
0.4
|
1.0
|
CB
|
C:ASN401
|
3.6
|
0.7
|
1.0
|
CG
|
C:MET311
|
3.7
|
0.2
|
1.0
|
O
|
C:ILE309
|
3.7
|
0.3
|
1.0
|
C
|
C:ASN310
|
3.7
|
0.9
|
1.0
|
CA
|
C:ALA307
|
3.8
|
0.0
|
1.0
|
C
|
C:ALA307
|
3.9
|
0.8
|
1.0
|
CA
|
C:ASN401
|
3.9
|
0.5
|
1.0
|
O
|
C:ALA307
|
3.9
|
0.8
|
1.0
|
OG
|
C:SER278
|
4.0
|
1.0
|
1.0
|
N
|
C:ALA307
|
4.0
|
0.3
|
1.0
|
CA
|
C:MET311
|
4.1
|
0.0
|
1.0
|
N
|
C:MET311
|
4.3
|
0.1
|
1.0
|
N
|
C:VAL402
|
4.4
|
0.1
|
1.0
|
ND2
|
C:ASN310
|
4.4
|
0.6
|
1.0
|
CB
|
C:MET311
|
4.5
|
0.7
|
1.0
|
CG
|
C:ASN401
|
4.6
|
0.4
|
1.0
|
N
|
C:THR308
|
4.6
|
0.2
|
1.0
|
CA
|
C:GLY306
|
4.6
|
0.0
|
1.0
|
CB
|
C:ASP405
|
4.7
|
0.1
|
1.0
|
C
|
C:ILE309
|
4.7
|
0.1
|
1.0
|
CA
|
C:ASN310
|
4.9
|
0.9
|
1.0
|
CB
|
C:ASN310
|
4.9
|
0.5
|
1.0
|
CA
|
C:VAL402
|
4.9
|
0.8
|
1.0
|
SD
|
C:MET311
|
4.9
|
0.4
|
1.0
|
|
Thallium binding site 6 out
of 6 in 4p6h
Go back to
Thallium Binding Sites List in 4p6h
Thallium binding site 6 out
of 6 in the Tl+-Bound Inward-Facing State (Bound Conformation) of the Glutamate Transporter Homologue Gltph
Mono view
Stereo pair view
|
A full contact list of Thallium with other atoms in the Tl binding
site number 6 of Tl+-Bound Inward-Facing State (Bound Conformation) of the Glutamate Transporter Homologue Gltph within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Tl503
b:0.9
occ:0.40
|
O
|
C:THR352
|
2.0
|
0.6
|
1.0
|
O
|
C:THR308
|
2.1
|
0.6
|
1.0
|
O
|
C:SER349
|
2.3
|
0.5
|
1.0
|
C
|
C:THR308
|
2.9
|
0.6
|
1.0
|
C
|
C:THR352
|
3.0
|
0.9
|
1.0
|
C
|
C:SER349
|
3.3
|
0.5
|
1.0
|
N
|
C:THR352
|
3.3
|
0.8
|
1.0
|
C
|
C:GLY351
|
3.4
|
0.4
|
1.0
|
CA
|
C:THR352
|
3.5
|
0.7
|
1.0
|
O
|
C:GLY351
|
3.5
|
0.9
|
1.0
|
C
|
C:ILE350
|
3.6
|
0.2
|
1.0
|
N
|
C:ILE309
|
3.7
|
0.1
|
1.0
|
O
|
C:ILE350
|
3.7
|
0.9
|
1.0
|
CA
|
C:THR308
|
3.8
|
0.8
|
1.0
|
CA
|
C:ILE350
|
3.8
|
0.8
|
1.0
|
CB
|
C:THR352
|
3.8
|
0.7
|
1.0
|
CA
|
C:ILE309
|
3.9
|
0.2
|
1.0
|
N
|
C:GLY351
|
3.9
|
0.1
|
1.0
|
N
|
C:ILE350
|
3.9
|
0.5
|
1.0
|
SD
|
C:MET311
|
4.1
|
0.4
|
1.0
|
N
|
C:ALA353
|
4.1
|
0.2
|
1.0
|
CB
|
C:THR308
|
4.3
|
0.7
|
1.0
|
CA
|
C:GLY351
|
4.3
|
0.9
|
1.0
|
CA
|
C:SER349
|
4.3
|
0.6
|
1.0
|
CG
|
C:MET311
|
4.4
|
0.2
|
1.0
|
OG1
|
C:THR352
|
4.4
|
0.3
|
1.0
|
CA
|
C:ALA353
|
4.6
|
0.0
|
1.0
|
C
|
C:ILE309
|
4.9
|
0.1
|
1.0
|
OG
|
C:SER349
|
4.9
|
0.5
|
1.0
|
CB
|
C:ILE309
|
4.9
|
0.4
|
1.0
|
|
Reference:
G.Verdon,
S.Oh,
R.N.Serio,
O.Boudker.
Coupled Ion Binding and Structural Transitions Along the Transport Cycle of Glutamate Transporters. Elife V. 3 02283 2014.
ISSN: ESSN 2050-084X
PubMed: 24842876
DOI: 10.7554/ELIFE.02283
Page generated: Fri Oct 11 10:06:45 2024
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