Sodium in PDB 6r7r: Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate
Protein crystallography data
The structure of Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate, PDB code: 6r7r
was solved by
V.Arkhipova,
A.Guskov,
D.J.Slotboom,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
48.06 /
2.80
|
Space group
|
P 32 2 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
116.550,
116.550,
314.770,
90.00,
90.00,
120.00
|
R / Rfree (%)
|
23.2 /
26.9
|
Sodium Binding Sites:
The binding sites of Sodium atom in the Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate
(pdb code 6r7r). This binding sites where shown within
5.0 Angstroms radius around Sodium atom.
In total 9 binding sites of Sodium where determined in the
Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate, PDB code: 6r7r:
Jump to Sodium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
Sodium binding site 1 out
of 9 in 6r7r
Go back to
Sodium Binding Sites List in 6r7r
Sodium binding site 1 out
of 9 in the Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate
Mono view
Stereo pair view
|
A full contact list of Sodium with other atoms in the Na binding
site number 1 of Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Na501
b:0.7
occ:1.00
|
O
|
A:ASN405
|
2.3
|
0.1
|
1.0
|
O
|
A:GLY309
|
2.5
|
0.8
|
1.0
|
O
|
A:ASN313
|
2.6
|
0.1
|
1.0
|
OD2
|
A:ASP409
|
2.8
|
0.1
|
1.0
|
C
|
A:ASN405
|
3.0
|
0.8
|
1.0
|
CG
|
A:ASP409
|
3.3
|
0.7
|
1.0
|
OD1
|
A:ASP409
|
3.3
|
0.4
|
1.0
|
CA
|
A:ALA310
|
3.3
|
91.6
|
1.0
|
C
|
A:GLY309
|
3.4
|
0.5
|
1.0
|
OG
|
A:SER280
|
3.4
|
77.1
|
1.0
|
CB
|
A:ASN405
|
3.6
|
0.5
|
1.0
|
O
|
A:ALA310
|
3.6
|
0.8
|
1.0
|
C
|
A:ASN313
|
3.7
|
0.8
|
1.0
|
C
|
A:ALA310
|
3.7
|
1.0
|
1.0
|
CA
|
A:ASN405
|
3.7
|
0.2
|
1.0
|
N
|
A:ALA310
|
3.7
|
87.6
|
1.0
|
N
|
A:VAL406
|
3.8
|
0.8
|
1.0
|
ND2
|
A:ASN313
|
4.2
|
0.5
|
1.0
|
CA
|
A:VAL406
|
4.2
|
96.9
|
1.0
|
CB
|
A:SER280
|
4.3
|
76.1
|
1.0
|
CG
|
A:MET314
|
4.5
|
87.7
|
1.0
|
CB
|
A:ASP409
|
4.5
|
0.0
|
1.0
|
CB
|
A:ASN313
|
4.5
|
0.1
|
1.0
|
CB
|
A:ALA310
|
4.5
|
97.1
|
1.0
|
CA
|
A:ASN313
|
4.5
|
0.3
|
1.0
|
CA
|
A:GLY309
|
4.6
|
0.6
|
1.0
|
N
|
A:MET314
|
4.6
|
0.8
|
1.0
|
CA
|
A:MET314
|
4.7
|
91.5
|
1.0
|
N
|
A:THR311
|
4.7
|
0.8
|
1.0
|
CG
|
A:ASN405
|
4.7
|
0.7
|
1.0
|
N
|
A:ASN313
|
4.7
|
0.6
|
1.0
|
CG2
|
A:VAL406
|
4.9
|
79.5
|
1.0
|
CG
|
A:ASN313
|
4.9
|
0.1
|
1.0
|
|
Sodium binding site 2 out
of 9 in 6r7r
Go back to
Sodium Binding Sites List in 6r7r
Sodium binding site 2 out
of 9 in the Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate
Mono view
Stereo pair view
|
A full contact list of Sodium with other atoms in the Na binding
site number 2 of Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Na502
b:96.9
occ:1.00
|
O
|
A:SER352
|
2.1
|
0.4
|
1.0
|
O
|
A:THR311
|
2.2
|
0.3
|
1.0
|
O
|
A:THR355
|
2.3
|
82.6
|
1.0
|
O
|
A:ILE353
|
2.6
|
91.9
|
1.0
|
C
|
A:ILE353
|
2.9
|
97.0
|
1.0
|
N
|
A:THR355
|
3.0
|
83.5
|
1.0
|
SD
|
A:MET314
|
3.0
|
89.8
|
1.0
|
C
|
A:THR355
|
3.1
|
85.6
|
1.0
|
C
|
A:SER352
|
3.2
|
0.6
|
1.0
|
CA
|
A:THR355
|
3.4
|
76.4
|
1.0
|
C
|
A:THR311
|
3.4
|
93.2
|
1.0
|
CA
|
A:ILE353
|
3.5
|
86.1
|
1.0
|
N
|
A:GLY354
|
3.5
|
0.9
|
1.0
|
C
|
A:GLY354
|
3.6
|
81.4
|
1.0
|
CB
|
A:THR355
|
3.6
|
83.0
|
1.0
|
N
|
A:ILE353
|
3.8
|
96.7
|
1.0
|
CE
|
A:MET314
|
3.9
|
94.3
|
1.0
|
CA
|
A:GLY354
|
4.0
|
84.0
|
1.0
|
CA
|
A:ILE312
|
4.1
|
89.4
|
1.0
|
O
|
A:GLY354
|
4.2
|
97.8
|
1.0
|
N
|
A:ILE312
|
4.2
|
79.0
|
1.0
|
CA
|
A:SER352
|
4.3
|
0.6
|
1.0
|
N
|
A:ALA356
|
4.3
|
85.3
|
1.0
|
CA
|
A:THR311
|
4.4
|
84.2
|
1.0
|
OG1
|
A:THR355
|
4.4
|
94.2
|
1.0
|
CG
|
A:MET314
|
4.5
|
87.7
|
1.0
|
CG2
|
A:THR311
|
4.5
|
76.5
|
1.0
|
O
|
A:ALA351
|
4.6
|
0.6
|
1.0
|
C
|
A:ILE312
|
4.7
|
94.9
|
1.0
|
CG2
|
A:THR355
|
4.7
|
76.1
|
1.0
|
CB
|
A:MET314
|
4.9
|
93.7
|
1.0
|
CB
|
A:ILE353
|
5.0
|
87.5
|
1.0
|
CA
|
A:ALA356
|
5.0
|
81.6
|
1.0
|
|
Sodium binding site 3 out
of 9 in 6r7r
Go back to
Sodium Binding Sites List in 6r7r
Sodium binding site 3 out
of 9 in the Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate
Mono view
Stereo pair view
|
A full contact list of Sodium with other atoms in the Na binding
site number 3 of Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Na503
b:0.6
occ:1.00
|
OD1
|
A:ASN313
|
2.2
|
0.4
|
1.0
|
OG1
|
A:THR94
|
2.4
|
0.0
|
1.0
|
O
|
A:TYR91
|
2.4
|
92.1
|
1.0
|
OD1
|
A:ASP315
|
2.6
|
1.0
|
1.0
|
N
|
A:SER95
|
2.8
|
0.4
|
1.0
|
CB
|
A:THR94
|
3.1
|
0.8
|
1.0
|
OG
|
A:SER95
|
3.2
|
0.5
|
1.0
|
C
|
A:TYR91
|
3.3
|
0.8
|
1.0
|
C
|
A:THR94
|
3.3
|
0.9
|
1.0
|
CG
|
A:ASN313
|
3.3
|
0.1
|
1.0
|
CG
|
A:ASP315
|
3.5
|
1.0
|
1.0
|
CA
|
A:TYR91
|
3.5
|
0.5
|
1.0
|
CA
|
A:THR94
|
3.6
|
0.9
|
1.0
|
CA
|
A:SER95
|
3.6
|
1.0
|
1.0
|
OD2
|
A:ASP315
|
3.7
|
0.5
|
1.0
|
CB
|
A:SER95
|
3.7
|
0.6
|
1.0
|
N
|
A:THR94
|
3.9
|
0.6
|
1.0
|
ND2
|
A:ASN313
|
4.1
|
0.5
|
1.0
|
O
|
A:THR94
|
4.2
|
0.8
|
1.0
|
O
|
A:TYR90
|
4.2
|
0.3
|
1.0
|
CD1
|
A:TYR91
|
4.3
|
0.6
|
1.0
|
CB
|
A:ASN313
|
4.3
|
0.1
|
1.0
|
CB
|
A:TYR91
|
4.3
|
0.3
|
1.0
|
CG2
|
A:THR94
|
4.5
|
0.8
|
1.0
|
N
|
A:LEU92
|
4.6
|
0.5
|
1.0
|
CA
|
A:ASN313
|
4.6
|
0.3
|
1.0
|
N
|
A:TYR91
|
4.6
|
0.5
|
1.0
|
O
|
A:LEU92
|
4.7
|
0.6
|
1.0
|
CG
|
A:TYR91
|
4.8
|
0.7
|
1.0
|
CB
|
A:ASP315
|
4.8
|
0.0
|
1.0
|
C
|
A:TYR90
|
4.8
|
0.2
|
1.0
|
C
|
A:LEU92
|
4.9
|
0.9
|
1.0
|
N
|
A:ASP315
|
5.0
|
0.7
|
1.0
|
C
|
A:ALA93
|
5.0
|
1.0
|
1.0
|
|
Sodium binding site 4 out
of 9 in 6r7r
Go back to
Sodium Binding Sites List in 6r7r
Sodium binding site 4 out
of 9 in the Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate
Mono view
Stereo pair view
|
A full contact list of Sodium with other atoms in the Na binding
site number 4 of Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Na501
b:0.6
occ:1.00
|
O
|
B:SER352
|
2.2
|
94.9
|
1.0
|
O
|
B:THR311
|
2.3
|
0.4
|
1.0
|
O
|
B:ILE353
|
2.3
|
0.3
|
1.0
|
O
|
B:THR355
|
2.3
|
0.5
|
1.0
|
C
|
B:ILE353
|
2.7
|
0.4
|
1.0
|
N
|
B:THR355
|
3.0
|
84.5
|
1.0
|
SD
|
B:MET314
|
3.1
|
90.4
|
1.0
|
C
|
B:THR355
|
3.2
|
89.8
|
1.0
|
C
|
B:SER352
|
3.3
|
0.9
|
1.0
|
CA
|
B:ILE353
|
3.3
|
0.3
|
1.0
|
C
|
B:THR311
|
3.4
|
0.4
|
1.0
|
N
|
B:GLY354
|
3.5
|
89.6
|
1.0
|
C
|
B:GLY354
|
3.5
|
94.5
|
1.0
|
CA
|
B:THR355
|
3.5
|
85.5
|
1.0
|
N
|
B:ILE353
|
3.8
|
0.8
|
1.0
|
CB
|
B:THR355
|
3.8
|
84.6
|
1.0
|
CA
|
B:GLY354
|
3.9
|
88.0
|
1.0
|
CE
|
B:MET314
|
4.0
|
99.7
|
1.0
|
O
|
B:GLY354
|
4.1
|
0.5
|
1.0
|
CA
|
B:ILE312
|
4.2
|
93.4
|
1.0
|
N
|
B:ILE312
|
4.2
|
0.1
|
1.0
|
CG2
|
B:THR311
|
4.3
|
80.6
|
1.0
|
CA
|
B:THR311
|
4.3
|
0.9
|
1.0
|
N
|
B:ALA356
|
4.3
|
84.5
|
1.0
|
CA
|
B:SER352
|
4.5
|
0.9
|
1.0
|
OG1
|
B:THR355
|
4.6
|
88.6
|
1.0
|
CG
|
B:MET314
|
4.7
|
0.7
|
1.0
|
O
|
B:ALA351
|
4.8
|
0.7
|
1.0
|
CB
|
B:ILE353
|
4.8
|
96.3
|
1.0
|
C
|
B:ILE312
|
4.8
|
0.3
|
1.0
|
CA
|
B:ALA356
|
4.9
|
91.7
|
1.0
|
CG2
|
B:THR355
|
4.9
|
89.1
|
1.0
|
CB
|
B:THR311
|
4.9
|
95.1
|
1.0
|
|
Sodium binding site 5 out
of 9 in 6r7r
Go back to
Sodium Binding Sites List in 6r7r
Sodium binding site 5 out
of 9 in the Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate
Mono view
Stereo pair view
|
A full contact list of Sodium with other atoms in the Na binding
site number 5 of Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Na502
b:98.1
occ:1.00
|
O
|
B:ASN313
|
2.5
|
0.5
|
1.0
|
O
|
B:GLY309
|
2.6
|
0.5
|
1.0
|
O
|
B:ASN405
|
2.7
|
98.8
|
1.0
|
OD2
|
B:ASP409
|
3.0
|
0.6
|
1.0
|
CA
|
B:ALA310
|
3.4
|
0.6
|
1.0
|
C
|
B:ASN405
|
3.4
|
96.3
|
1.0
|
O
|
B:ALA310
|
3.4
|
0.6
|
1.0
|
C
|
B:ASN313
|
3.5
|
0.3
|
1.0
|
C
|
B:GLY309
|
3.5
|
0.7
|
1.0
|
C
|
B:ALA310
|
3.6
|
0.1
|
1.0
|
CG
|
B:ASP409
|
3.6
|
0.1
|
1.0
|
OG
|
B:SER280
|
3.6
|
80.9
|
1.0
|
OD1
|
B:ASP409
|
3.6
|
0.7
|
1.0
|
CB
|
B:ASN405
|
3.7
|
0.8
|
1.0
|
N
|
B:ALA310
|
3.8
|
0.2
|
1.0
|
CA
|
B:ASN405
|
4.0
|
0.4
|
1.0
|
CG
|
B:MET314
|
4.2
|
0.7
|
1.0
|
N
|
B:VAL406
|
4.2
|
96.8
|
1.0
|
ND2
|
B:ASN313
|
4.3
|
0.3
|
1.0
|
N
|
B:MET314
|
4.3
|
0.3
|
1.0
|
CB
|
B:SER280
|
4.3
|
79.7
|
1.0
|
CA
|
B:ASN313
|
4.4
|
0.7
|
1.0
|
CA
|
B:MET314
|
4.4
|
0.9
|
1.0
|
N
|
B:THR311
|
4.5
|
0.4
|
1.0
|
N
|
B:ASN313
|
4.5
|
0.3
|
1.0
|
CB
|
B:ASN313
|
4.5
|
0.8
|
1.0
|
CA
|
B:VAL406
|
4.6
|
0.3
|
1.0
|
CG
|
B:ASN405
|
4.6
|
0.0
|
1.0
|
CB
|
B:ALA310
|
4.6
|
1.0
|
1.0
|
CA
|
B:GLY309
|
4.7
|
0.9
|
1.0
|
CB
|
B:ASP409
|
4.9
|
0.5
|
1.0
|
CB
|
B:MET314
|
4.9
|
0.7
|
1.0
|
CG
|
B:ASN313
|
5.0
|
0.4
|
1.0
|
|
Sodium binding site 6 out
of 9 in 6r7r
Go back to
Sodium Binding Sites List in 6r7r
Sodium binding site 6 out
of 9 in the Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate
Mono view
Stereo pair view
|
A full contact list of Sodium with other atoms in the Na binding
site number 6 of Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Na503
b:0.1
occ:1.00
|
OD1
|
B:ASN313
|
2.2
|
0.9
|
1.0
|
O
|
B:TYR91
|
2.2
|
0.9
|
1.0
|
OG1
|
B:THR94
|
2.6
|
0.0
|
1.0
|
OD1
|
B:ASP315
|
2.8
|
0.8
|
1.0
|
OG
|
B:SER95
|
2.8
|
0.5
|
1.0
|
N
|
B:SER95
|
3.0
|
0.8
|
1.0
|
C
|
B:TYR91
|
3.2
|
0.3
|
1.0
|
CG
|
B:ASN313
|
3.3
|
0.4
|
1.0
|
CA
|
B:TYR91
|
3.5
|
0.8
|
1.0
|
CB
|
B:SER95
|
3.5
|
0.2
|
1.0
|
CB
|
B:THR94
|
3.5
|
0.1
|
1.0
|
CA
|
B:SER95
|
3.6
|
0.6
|
1.0
|
CG
|
B:ASP315
|
3.7
|
0.8
|
1.0
|
C
|
B:THR94
|
3.7
|
0.9
|
1.0
|
OD2
|
B:ASP315
|
3.9
|
0.5
|
1.0
|
CA
|
B:THR94
|
4.0
|
0.2
|
1.0
|
ND2
|
B:ASN313
|
4.1
|
0.3
|
1.0
|
CB
|
B:ASN313
|
4.2
|
0.8
|
1.0
|
N
|
B:THR94
|
4.2
|
0.3
|
1.0
|
CB
|
B:TYR91
|
4.2
|
0.9
|
1.0
|
O
|
B:TYR90
|
4.3
|
0.1
|
1.0
|
CD1
|
B:TYR91
|
4.4
|
0.8
|
1.0
|
N
|
B:LEU92
|
4.4
|
0.3
|
1.0
|
CA
|
B:ASN313
|
4.4
|
0.7
|
1.0
|
O
|
B:THR94
|
4.6
|
0.4
|
1.0
|
N
|
B:TYR91
|
4.7
|
0.6
|
1.0
|
CG
|
B:TYR91
|
4.7
|
0.2
|
1.0
|
C
|
B:ASN313
|
4.8
|
0.3
|
1.0
|
CG2
|
B:THR94
|
4.9
|
0.2
|
1.0
|
C
|
B:LEU92
|
4.9
|
0.9
|
1.0
|
CA
|
B:LEU92
|
4.9
|
0.8
|
1.0
|
O
|
B:LEU92
|
5.0
|
0.1
|
1.0
|
C
|
B:TYR90
|
5.0
|
0.7
|
1.0
|
N
|
B:ASP315
|
5.0
|
0.8
|
1.0
|
N
|
B:MET314
|
5.0
|
0.3
|
1.0
|
|
Sodium binding site 7 out
of 9 in 6r7r
Go back to
Sodium Binding Sites List in 6r7r
Sodium binding site 7 out
of 9 in the Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate
Mono view
Stereo pair view
|
A full contact list of Sodium with other atoms in the Na binding
site number 7 of Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Na501
b:0.5
occ:1.00
|
O
|
C:ASN313
|
2.3
|
0.1
|
1.0
|
OD2
|
C:ASP409
|
2.6
|
0.2
|
1.0
|
O
|
C:ASN405
|
2.7
|
0.0
|
1.0
|
O
|
C:GLY309
|
2.7
|
0.5
|
1.0
|
OD1
|
C:ASP409
|
3.1
|
0.5
|
1.0
|
CG
|
C:ASP409
|
3.1
|
0.7
|
1.0
|
C
|
C:ASN405
|
3.3
|
0.8
|
1.0
|
C
|
C:ASN313
|
3.5
|
0.7
|
1.0
|
CA
|
C:ALA310
|
3.6
|
0.2
|
1.0
|
C
|
C:GLY309
|
3.6
|
0.5
|
1.0
|
CB
|
C:ASN405
|
3.7
|
0.1
|
1.0
|
OG
|
C:SER280
|
3.7
|
93.9
|
1.0
|
O
|
C:ALA310
|
3.8
|
0.3
|
1.0
|
C
|
C:ALA310
|
3.8
|
0.6
|
1.0
|
CA
|
C:ASN405
|
3.9
|
0.4
|
1.0
|
N
|
C:ALA310
|
4.0
|
1.0
|
1.0
|
N
|
C:VAL406
|
4.2
|
0.3
|
1.0
|
ND2
|
C:ASN313
|
4.2
|
0.4
|
1.0
|
CG
|
C:MET314
|
4.2
|
0.6
|
1.0
|
N
|
C:MET314
|
4.4
|
0.7
|
1.0
|
CA
|
C:MET314
|
4.4
|
0.9
|
1.0
|
CB
|
C:ASP409
|
4.4
|
0.3
|
1.0
|
CB
|
C:SER280
|
4.5
|
90.0
|
1.0
|
CA
|
C:ASN313
|
4.5
|
0.3
|
1.0
|
CB
|
C:ASN313
|
4.6
|
0.9
|
1.0
|
CA
|
C:VAL406
|
4.6
|
0.4
|
1.0
|
CG
|
C:ASN405
|
4.6
|
0.3
|
1.0
|
N
|
C:ASN313
|
4.7
|
0.3
|
1.0
|
N
|
C:THR311
|
4.8
|
0.9
|
1.0
|
CA
|
C:GLY309
|
4.8
|
0.1
|
1.0
|
CB
|
C:ALA310
|
4.8
|
0.3
|
1.0
|
CG
|
C:ASN313
|
4.9
|
0.8
|
1.0
|
CB
|
C:MET314
|
4.9
|
1.0
|
1.0
|
|
Sodium binding site 8 out
of 9 in 6r7r
Go back to
Sodium Binding Sites List in 6r7r
Sodium binding site 8 out
of 9 in the Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate
Mono view
Stereo pair view
|
A full contact list of Sodium with other atoms in the Na binding
site number 8 of Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Na502
b:0.9
occ:1.00
|
O
|
C:THR311
|
2.1
|
0.9
|
1.0
|
O
|
C:THR355
|
2.3
|
1.0
|
1.0
|
O
|
C:SER352
|
2.3
|
0.9
|
1.0
|
O
|
C:ILE353
|
2.6
|
0.4
|
1.0
|
SD
|
C:MET314
|
3.0
|
0.3
|
1.0
|
C
|
C:ILE353
|
3.1
|
95.1
|
1.0
|
C
|
C:THR355
|
3.1
|
0.4
|
1.0
|
N
|
C:THR355
|
3.2
|
98.7
|
1.0
|
C
|
C:THR311
|
3.3
|
0.2
|
1.0
|
C
|
C:SER352
|
3.4
|
0.7
|
1.0
|
CA
|
C:THR355
|
3.5
|
0.5
|
1.0
|
CA
|
C:ILE353
|
3.6
|
94.7
|
1.0
|
C
|
C:GLY354
|
3.6
|
97.3
|
1.0
|
N
|
C:GLY354
|
3.7
|
0.3
|
1.0
|
CB
|
C:THR355
|
3.8
|
0.9
|
1.0
|
N
|
C:ILE353
|
4.0
|
0.8
|
1.0
|
CE
|
C:MET314
|
4.1
|
0.9
|
1.0
|
CA
|
C:ILE312
|
4.1
|
0.6
|
1.0
|
CA
|
C:GLY354
|
4.1
|
96.6
|
1.0
|
N
|
C:ILE312
|
4.2
|
98.0
|
1.0
|
O
|
C:GLY354
|
4.3
|
0.1
|
1.0
|
CA
|
C:THR311
|
4.3
|
0.6
|
1.0
|
N
|
C:ALA356
|
4.3
|
90.8
|
1.0
|
CG
|
C:MET314
|
4.4
|
0.6
|
1.0
|
C
|
C:ILE312
|
4.6
|
0.0
|
1.0
|
OG1
|
C:THR355
|
4.6
|
0.1
|
1.0
|
CG2
|
C:THR311
|
4.6
|
81.1
|
1.0
|
CA
|
C:SER352
|
4.7
|
0.1
|
1.0
|
CB
|
C:MET314
|
4.7
|
1.0
|
1.0
|
O
|
C:ILE312
|
4.8
|
0.1
|
1.0
|
CA
|
C:ALA356
|
4.8
|
89.1
|
1.0
|
CG2
|
C:THR355
|
4.9
|
97.9
|
1.0
|
|
Sodium binding site 9 out
of 9 in 6r7r
Go back to
Sodium Binding Sites List in 6r7r
Sodium binding site 9 out
of 9 in the Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate
Mono view
Stereo pair view
|
A full contact list of Sodium with other atoms in the Na binding
site number 9 of Crystal Structure of the Glutamate Transporter Homologue Glttk in Complex with D-Aspartate within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Na503
b:0.4
occ:1.00
|
OD1
|
C:ASP315
|
2.2
|
0.2
|
1.0
|
O
|
C:TYR91
|
2.3
|
0.7
|
1.0
|
N
|
C:SER95
|
2.4
|
0.3
|
1.0
|
OG
|
C:SER95
|
2.5
|
0.3
|
1.0
|
OD1
|
C:ASN313
|
2.6
|
0.8
|
1.0
|
CA
|
C:SER95
|
2.9
|
0.5
|
1.0
|
CB
|
C:SER95
|
3.0
|
0.8
|
1.0
|
OG1
|
C:THR94
|
3.0
|
0.0
|
1.0
|
C
|
C:THR94
|
3.1
|
0.7
|
1.0
|
CG
|
C:ASP315
|
3.3
|
0.7
|
1.0
|
C
|
C:TYR91
|
3.3
|
0.6
|
1.0
|
CG
|
C:ASN313
|
3.6
|
0.8
|
1.0
|
CB
|
C:THR94
|
3.6
|
0.8
|
1.0
|
CA
|
C:THR94
|
3.8
|
0.4
|
1.0
|
OD2
|
C:ASP315
|
3.9
|
0.1
|
1.0
|
CA
|
C:TYR91
|
3.9
|
0.8
|
1.0
|
O
|
C:THR94
|
3.9
|
0.4
|
1.0
|
N
|
C:THR94
|
4.2
|
0.1
|
1.0
|
ND2
|
C:ASN313
|
4.3
|
0.4
|
1.0
|
N
|
C:ASP315
|
4.4
|
0.1
|
1.0
|
C
|
C:SER95
|
4.4
|
0.3
|
1.0
|
CB
|
C:ASP315
|
4.5
|
0.7
|
1.0
|
CA
|
C:ASP315
|
4.5
|
0.1
|
1.0
|
N
|
C:LEU92
|
4.5
|
0.5
|
1.0
|
CB
|
C:ASN313
|
4.5
|
0.9
|
1.0
|
CB
|
C:TYR91
|
4.5
|
0.9
|
1.0
|
CA
|
C:ASN313
|
4.6
|
0.3
|
1.0
|
O
|
C:TYR90
|
4.7
|
0.6
|
1.0
|
O
|
C:LEU92
|
4.7
|
0.0
|
1.0
|
N
|
C:MET314
|
4.8
|
0.7
|
1.0
|
C
|
C:MET314
|
4.8
|
0.2
|
1.0
|
C
|
C:LEU92
|
4.8
|
0.3
|
1.0
|
CA
|
C:LEU92
|
4.9
|
0.5
|
1.0
|
C
|
C:ASN313
|
4.9
|
0.7
|
1.0
|
|
Reference:
V.Arkhipova,
G.Trinco,
T.W.Ettema,
S.Jensen,
D.J.Slotboom,
A.Guskov.
Binding and Transport of D-Aspartate By the Glutamate Transporter Homolog Glttk. Elife V. 8 2019.
ISSN: ESSN 2050-084X
PubMed: 30969168
DOI: 10.7554/ELIFE.45286
Page generated: Tue Oct 8 13:05:59 2024
|