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Thallium in PDB 4p1a: Thallium-Bound Inward-Facing State of the Glutamate Transporter Homologue Gltph

Protein crystallography data

The structure of Thallium-Bound Inward-Facing State of the Glutamate Transporter Homologue Gltph, PDB code: 4p1a 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 / 3.75
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 106.979, 196.564, 206.499, 90.00, 90.00, 90.00
R / Rfree (%) 23 / 25.7

Other elements in 4p1a:

The structure of Thallium-Bound Inward-Facing State 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 Thallium-Bound Inward-Facing State of the Glutamate Transporter Homologue Gltph (pdb code 4p1a). This binding sites where shown within 5.0 Angstroms radius around Thallium atom.
In total 6 binding sites of Thallium where determined in the Thallium-Bound Inward-Facing State of the Glutamate Transporter Homologue Gltph, PDB code: 4p1a:
Jump to Thallium binding site number: 1; 2; 3; 4; 5; 6;

Thallium binding site 1 out of 6 in 4p1a

Go back to Thallium Binding Sites List in 4p1a
Thallium binding site 1 out of 6 in the Thallium-Bound Inward-Facing State 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 Thallium-Bound Inward-Facing State of the Glutamate Transporter Homologue Gltph within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Tl501

b:0.1
occ:0.80
 O A:THR308 2.7 1.0 1.0
O A:SER349 2.8 0.3 1.0
O A:ASN310 3.4 0.7 1.0
N A:GLY351 3.4 0.8 1.0
N A:THR352 3.5 0.7 1.0
C A:SER349 3.6 0.5 1.0
N A:ALA353 3.6 0.7 1.0
CA A:ILE350 3.6 0.4 1.0
C A:ILE309 3.7 0.1 1.0
O A:ILE309 3.7 0.9 1.0
C A:THR308 3.8 0.6 1.0
CA A:ILE309 3.9 0.9 1.0
CA A:ALA353 3.9 0.1 1.0
C A:ILE350 3.9 0.2 1.0
N A:ILE350 3.9 0.6 1.0
C A:ASN310 4.0 0.3 1.0
C A:THR352 4.0 0.5 1.0
OG A:SER349 4.0 0.8 1.0
CB A:ALA353 4.1 1.0 1.0
CA A:THR352 4.3 0.9 1.0
N A:ASN310 4.3 0.4 1.0
CG A:MET311 4.3 0.3 1.0
N A:ILE309 4.3 0.2 1.0
C A:GLY351 4.4 0.1 1.0
CA A:GLY351 4.4 0.9 1.0
CA A:MET311 4.5 0.6 1.0
OG1 A:THR352 4.5 0.6 1.0
N A:MET311 4.6 0.0 1.0
CB A:SER349 4.7 0.2 1.0
O A:THR352 4.7 0.5 1.0
CA A:SER349 4.8 0.0 1.0
CA A:ASN310 4.8 0.1 1.0
CB A:ILE350 4.8 0.1 1.0
CB A:THR352 4.9 0.8 1.0
CB A:MET311 5.0 0.8 1.0
OG1 A:THR314 5.0 0.2 1.0

Thallium binding site 2 out of 6 in 4p1a

Go back to Thallium Binding Sites List in 4p1a
Thallium binding site 2 out of 6 in the Thallium-Bound Inward-Facing State 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 Thallium-Bound Inward-Facing State of the Glutamate Transporter Homologue Gltph within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Tl502

b:0.2
occ:0.80
 O A:VAL355 2.9 0.8 1.0
OD2 A:ASP394 2.9 0.9 1.0
O A:ARG276 2.9 0.5 1.0
OG1 A:THR398 2.9 0.5 1.0
O A:PRO356 3.2 0.7 1.0
NH2 A:ARG397 3.4 0.0 1.0
O A:ALA353 3.6 1.0 1.0
CZ A:ARG397 3.7 0.2 1.0
NH1 A:ARG397 3.8 0.3 1.0
CA A:GLY354 3.9 0.6 1.0
CG A:ASP394 4.0 0.8 1.0
C A:VAL355 4.0 0.5 1.0
C A:ARG276 4.1 0.6 1.0
C A:PRO356 4.1 0.7 1.0
CB A:THR398 4.1 0.8 1.0
CG2 A:THR398 4.3 0.6 1.0
O A:ASP394 4.3 0.5 1.0
CA A:PRO356 4.4 0.1 1.0
NE A:ARG397 4.5 0.2 1.0
OD1 A:ASP394 4.5 0.0 1.0
C A:ALA353 4.6 0.5 1.0
CA A:THR398 4.7 0.8 1.0
N A:PRO356 4.7 0.1 1.0
N A:THR398 4.7 0.7 1.0
CA A:ARG276 4.7 0.5 1.0
N A:GLY354 4.8 0.3 1.0
N A:ALA358 4.9 0.4 1.0
CB A:ARG276 4.9 0.4 1.0
CG1 A:VAL355 4.9 1.0 1.0

Thallium binding site 3 out of 6 in 4p1a

Go back to Thallium Binding Sites List in 4p1a
Thallium binding site 3 out of 6 in the Thallium-Bound Inward-Facing State 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 Thallium-Bound Inward-Facing State of the Glutamate Transporter Homologue Gltph within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Tl501

b:1.0
occ:0.80
 O B:THR308 2.8 0.6 1.0
O B:SER349 3.1 0.9 1.0
O B:ASN310 3.5 0.7 1.0
N B:GLY351 3.6 0.6 1.0
CA B:ILE350 3.7 0.3 1.0
C B:ILE309 3.7 0.1 1.0
O B:ILE309 3.7 0.3 1.0
N B:ALA353 3.7 0.1 1.0
C B:SER349 3.7 0.3 1.0
N B:THR352 3.7 0.3 1.0
CA B:ILE309 3.9 0.5 1.0
C B:ASN310 3.9 1.0 1.0
C B:THR308 3.9 0.5 1.0
CA B:ALA353 4.0 0.4 1.0
OG B:SER349 4.0 0.3 1.0
N B:ILE350 4.0 0.2 1.0
CB B:ALA353 4.0 1.0 1.0
C B:ILE350 4.1 0.6 1.0
CG B:MET311 4.1 0.4 1.0
N B:ASN310 4.2 0.1 1.0
C B:THR352 4.2 0.1 1.0
CA B:MET311 4.2 0.2 1.0
N B:MET311 4.4 0.4 1.0
N B:ILE309 4.4 0.5 1.0
CA B:THR352 4.5 0.5 1.0
C B:GLY351 4.6 0.0 1.0
CA B:GLY351 4.6 0.6 1.0
CA B:ASN310 4.6 0.8 1.0
CB B:SER349 4.7 0.9 1.0
CB B:MET311 4.7 0.9 1.0
OG1 B:THR352 4.7 0.6 1.0
CB B:ILE350 4.8 0.8 1.0
CA B:SER349 4.8 0.9 1.0
OG1 B:THR314 4.9 0.2 1.0
O B:THR352 4.9 0.5 1.0

Thallium binding site 4 out of 6 in 4p1a

Go back to Thallium Binding Sites List in 4p1a
Thallium binding site 4 out of 6 in the Thallium-Bound Inward-Facing State 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 Thallium-Bound Inward-Facing State of the Glutamate Transporter Homologue Gltph within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Tl502

b:0.8
occ:0.80
 OD2 B:ASP394 2.7 0.2 1.0
OG1 B:THR398 2.9 0.3 1.0
O B:ARG276 3.0 0.9 1.0
O B:VAL355 3.0 0.3 1.0
O B:PRO356 3.1 0.2 1.0
NH2 B:ARG397 3.4 0.7 1.0
CZ B:ARG397 3.6 0.2 1.0
NH1 B:ARG397 3.7 0.3 1.0
O B:ALA353 3.8 0.8 1.0
CG B:ASP394 3.9 1.0 1.0
CB B:THR398 4.1 0.1 1.0
C B:PRO356 4.1 0.8 1.0
CA B:GLY354 4.1 0.3 1.0
C B:ARG276 4.1 0.7 1.0
O B:ASP394 4.2 0.0 1.0
C B:VAL355 4.2 0.6 1.0
CG2 B:THR398 4.3 0.1 1.0
NE B:ARG397 4.4 0.6 1.0
OD1 B:ASP394 4.4 0.3 1.0
CA B:PRO356 4.5 0.1 1.0
CA B:THR398 4.6 0.4 1.0
N B:THR398 4.6 0.8 1.0
CA B:ARG276 4.8 0.2 1.0
C B:ALA353 4.8 0.2 1.0
N B:PRO356 4.8 0.1 1.0
CB B:ARG276 4.8 1.0 1.0
N B:ALA358 4.9 0.1 1.0
CB B:ASP394 5.0 0.7 1.0
N B:GLY354 5.0 0.3 1.0

Thallium binding site 5 out of 6 in 4p1a

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Thallium binding site 5 out of 6 in the Thallium-Bound Inward-Facing State 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 Thallium-Bound Inward-Facing State of the Glutamate Transporter Homologue Gltph within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Tl501

b:0.4
occ:0.50
 O C:SER349 2.9 0.9 1.0
O C:ASN310 3.1 0.7 1.0
O C:THR308 3.2 1.0 1.0
C C:SER349 3.6 0.7 1.0
N C:ALA353 3.7 0.6 1.0
OG C:SER349 3.7 0.4 1.0
O C:ILE309 3.7 0.8 1.0
C C:ASN310 3.7 0.8 1.0
CA C:ALA353 3.8 0.0 1.0
C C:ILE309 3.9 0.6 1.0
CA C:ILE350 3.9 0.2 1.0
N C:THR352 3.9 0.3 1.0
CA C:MET311 4.0 0.1 1.0
N C:GLY351 4.0 0.2 1.0
CB C:ALA353 4.0 0.5 1.0
CG C:MET311 4.1 0.4 1.0
N C:ILE350 4.1 0.1 1.0
C C:THR352 4.1 0.7 1.0
N C:MET311 4.2 0.8 1.0
CA C:ILE309 4.3 0.9 1.0
C C:THR308 4.3 0.3 1.0
N C:ASN310 4.4 0.5 1.0
OG1 C:THR314 4.4 0.3 1.0
C C:ILE350 4.4 1.0 1.0
CB C:SER349 4.5 0.9 1.0
CA C:THR352 4.5 1.0 1.0
CB C:MET311 4.6 0.7 1.0
OG1 C:THR352 4.6 0.9 1.0
CA C:ASN310 4.7 0.3 1.0
CA C:SER349 4.7 0.2 1.0
O C:THR352 4.8 0.3 1.0
N C:ILE309 4.8 0.9 1.0
C C:GLY351 4.9 0.4 1.0
CA C:GLY351 5.0 0.2 1.0

Thallium binding site 6 out of 6 in 4p1a

Go back to Thallium Binding Sites List in 4p1a
Thallium binding site 6 out of 6 in the Thallium-Bound Inward-Facing State 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 Thallium-Bound Inward-Facing State of the Glutamate Transporter Homologue Gltph within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Tl502

b:0.9
occ:0.50
 OD2 C:ASP394 2.3 0.1 1.0
OG1 C:THR398 2.7 0.6 1.0
O C:PRO356 3.0 1.0 1.0
O C:ARG276 3.2 0.3 1.0
NH2 C:ARG397 3.2 0.7 1.0
O C:VAL355 3.4 0.1 1.0
CG C:ASP394 3.4 0.9 1.0
CZ C:ARG397 3.4 0.2 1.0
NH1 C:ARG397 3.6 0.1 1.0
O C:ASP394 3.7 0.7 1.0
CB C:THR398 4.0 0.2 1.0
OD1 C:ASP394 4.0 0.6 1.0
O C:ALA353 4.1 0.1 1.0
C C:PRO356 4.1 0.7 1.0
NE C:ARG397 4.1 0.7 1.0
C C:ARG276 4.3 0.0 1.0
N C:THR398 4.3 0.1 1.0
CG2 C:THR398 4.4 0.7 1.0
CA C:THR398 4.5 0.0 1.0
CB C:ASP394 4.5 0.1 1.0
C C:VAL355 4.6 1.0 1.0
CA C:GLY354 4.6 0.5 1.0
C C:ASP394 4.7 1.0 1.0
CB C:ARG397 4.7 0.5 1.0
CA C:PRO356 4.7 0.1 1.0
CB C:ARG276 4.7 0.1 1.0
CA C:ARG276 4.8 0.5 1.0
CA C:ASP394 4.8 0.5 1.0
N C:ALA358 4.9 0.7 1.0
CD C:ARG397 5.0 0.1 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 02:28:46 2020

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