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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:

Mercury (Hg) 3 atoms

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: Wed Dec 16 02:28:48 2020

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