Potassium in PDB 8sd3: Cryoem Structure of Rat KV2.1(1-598) Wild Type in Nanodiscs
Potassium Binding Sites:
The binding sites of Potassium atom in the Cryoem Structure of Rat KV2.1(1-598) Wild Type in Nanodiscs
(pdb code 8sd3). This binding sites where shown within
5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the
Cryoem Structure of Rat KV2.1(1-598) Wild Type in Nanodiscs, PDB code: 8sd3:
Jump to Potassium binding site number:
1;
2;
3;
4;
Potassium binding site 1 out
of 4 in 8sd3
Go back to
Potassium Binding Sites List in 8sd3
Potassium binding site 1 out
of 4 in the Cryoem Structure of Rat KV2.1(1-598) Wild Type in Nanodiscs
 Mono view
 Stereo pair view
|
|
A full contact list of Potassium with other atoms in the K binding
site number 1 of Cryoem Structure of Rat KV2.1(1-598) Wild Type in Nanodiscs within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K1007
b:30.0
occ:1.00
|
O
|
C:TYR376
|
2.3
|
41.4
|
1.0
|
|
O
|
D:TYR376
|
2.4
|
41.4
|
1.0
|
|
O
|
A:TYR376
|
2.5
|
41.4
|
1.0
|
|
O
|
B:TYR376
|
2.6
|
41.4
|
1.0
|
|
O
|
C:GLY375
|
3.0
|
40.5
|
1.0
|
|
O
|
D:GLY375
|
3.0
|
40.5
|
1.0
|
|
O
|
A:GLY375
|
3.1
|
40.5
|
1.0
|
|
O
|
B:GLY375
|
3.1
|
40.5
|
1.0
|
|
C
|
C:TYR376
|
3.2
|
41.4
|
1.0
|
|
C
|
D:TYR376
|
3.3
|
41.4
|
1.0
|
|
C
|
A:TYR376
|
3.4
|
41.4
|
1.0
|
|
C
|
B:TYR376
|
3.5
|
41.4
|
1.0
|
|
K
|
A:K1008
|
3.5
|
30.0
|
1.0
|
|
HA
|
C:TYR376
|
3.6
|
41.4
|
1.0
|
|
HA3
|
D:GLY377
|
3.7
|
43.6
|
1.0
|
|
HA3
|
C:GLY377
|
3.7
|
43.6
|
1.0
|
|
HA
|
D:TYR376
|
3.8
|
41.4
|
1.0
|
|
HA
|
A:TYR376
|
3.8
|
41.4
|
1.0
|
|
HA3
|
B:GLY377
|
3.8
|
43.6
|
1.0
|
|
HA3
|
A:GLY377
|
3.9
|
43.6
|
1.0
|
|
HA
|
B:TYR376
|
3.9
|
41.4
|
1.0
|
|
CA
|
C:TYR376
|
3.9
|
41.4
|
1.0
|
|
C
|
C:GLY375
|
4.0
|
40.5
|
1.0
|
|
CA
|
D:TYR376
|
4.0
|
41.4
|
1.0
|
|
N
|
C:GLY377
|
4.0
|
43.6
|
1.0
|
|
C
|
D:GLY375
|
4.1
|
40.5
|
1.0
|
|
N
|
D:GLY377
|
4.1
|
43.6
|
1.0
|
|
CA
|
A:TYR376
|
4.1
|
41.4
|
1.0
|
|
C
|
A:GLY375
|
4.2
|
40.5
|
1.0
|
|
CA
|
B:TYR376
|
4.2
|
41.4
|
1.0
|
|
C
|
B:GLY375
|
4.2
|
40.5
|
1.0
|
|
N
|
A:GLY377
|
4.3
|
43.6
|
1.0
|
|
N
|
B:GLY377
|
4.3
|
43.6
|
1.0
|
|
CA
|
D:GLY377
|
4.3
|
43.6
|
1.0
|
|
CA
|
C:GLY377
|
4.3
|
43.6
|
1.0
|
|
N
|
C:TYR376
|
4.5
|
41.4
|
1.0
|
|
CA
|
B:GLY377
|
4.5
|
43.6
|
1.0
|
|
CA
|
A:GLY377
|
4.5
|
43.6
|
1.0
|
|
N
|
D:TYR376
|
4.6
|
41.4
|
1.0
|
|
HA2
|
D:GLY377
|
4.6
|
43.6
|
1.0
|
|
HA2
|
C:GLY377
|
4.7
|
43.6
|
1.0
|
|
N
|
A:TYR376
|
4.7
|
41.4
|
1.0
|
|
N
|
B:TYR376
|
4.7
|
41.4
|
1.0
|
|
H
|
C:GLY377
|
4.8
|
43.6
|
1.0
|
|
H
|
D:GLY377
|
4.8
|
43.6
|
1.0
|
|
HA2
|
B:GLY377
|
4.8
|
43.6
|
1.0
|
|
HA2
|
A:GLY377
|
4.9
|
43.6
|
1.0
|
|
H
|
A:GLY377
|
5.0
|
43.6
|
1.0
|
|
H
|
B:GLY377
|
5.0
|
43.6
|
1.0
|
|
Potassium binding site 2 out
of 4 in 8sd3
Go back to
Potassium Binding Sites List in 8sd3
Potassium binding site 2 out
of 4 in the Cryoem Structure of Rat KV2.1(1-598) Wild Type in Nanodiscs
 Mono view
 Stereo pair view
|
|
A full contact list of Potassium with other atoms in the K binding
site number 2 of Cryoem Structure of Rat KV2.1(1-598) Wild Type in Nanodiscs within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K1008
b:30.0
occ:1.00
|
O
|
C:GLY375
|
2.3
|
40.5
|
1.0
|
|
O
|
A:GLY375
|
2.5
|
40.5
|
1.0
|
|
O
|
D:GLY375
|
2.5
|
40.5
|
1.0
|
|
O
|
C:VAL374
|
2.5
|
39.9
|
1.0
|
|
O
|
A:VAL374
|
2.6
|
39.9
|
1.0
|
|
O
|
B:GLY375
|
2.6
|
40.5
|
1.0
|
|
O
|
D:VAL374
|
2.7
|
39.9
|
1.0
|
|
O
|
B:VAL374
|
2.8
|
39.9
|
1.0
|
|
C
|
C:GLY375
|
3.3
|
40.5
|
1.0
|
|
K
|
A:K1009
|
3.3
|
30.0
|
1.0
|
|
HA3
|
C:GLY375
|
3.4
|
40.5
|
1.0
|
|
C
|
A:GLY375
|
3.4
|
40.5
|
1.0
|
|
C
|
D:GLY375
|
3.5
|
40.5
|
1.0
|
|
HA3
|
D:GLY375
|
3.5
|
40.5
|
1.0
|
|
K
|
A:K1007
|
3.5
|
30.0
|
1.0
|
|
HA3
|
A:GLY375
|
3.6
|
40.5
|
1.0
|
|
C
|
B:GLY375
|
3.6
|
40.5
|
1.0
|
|
C
|
C:VAL374
|
3.7
|
39.9
|
1.0
|
|
HA3
|
B:GLY375
|
3.7
|
40.5
|
1.0
|
|
CA
|
C:GLY375
|
3.7
|
40.5
|
1.0
|
|
C
|
A:VAL374
|
3.7
|
39.9
|
1.0
|
|
C
|
D:VAL374
|
3.9
|
39.9
|
1.0
|
|
CA
|
D:GLY375
|
3.9
|
40.5
|
1.0
|
|
CA
|
A:GLY375
|
3.9
|
40.5
|
1.0
|
|
C
|
B:VAL374
|
3.9
|
39.9
|
1.0
|
|
CA
|
B:GLY375
|
4.1
|
40.5
|
1.0
|
|
N
|
C:GLY375
|
4.2
|
40.5
|
1.0
|
|
N
|
A:GLY375
|
4.3
|
40.5
|
1.0
|
|
HA
|
C:TYR376
|
4.3
|
41.4
|
1.0
|
|
HA
|
A:TYR376
|
4.3
|
41.4
|
1.0
|
|
N
|
C:TYR376
|
4.3
|
41.4
|
1.0
|
|
N
|
D:GLY375
|
4.4
|
40.5
|
1.0
|
|
N
|
A:TYR376
|
4.4
|
41.4
|
1.0
|
|
N
|
B:GLY375
|
4.5
|
40.5
|
1.0
|
|
HA
|
B:TYR376
|
4.5
|
41.4
|
1.0
|
|
HA
|
D:TYR376
|
4.5
|
41.4
|
1.0
|
|
N
|
D:TYR376
|
4.6
|
41.4
|
1.0
|
|
HA2
|
C:GLY375
|
4.6
|
40.5
|
1.0
|
|
N
|
B:TYR376
|
4.7
|
41.4
|
1.0
|
|
CA
|
C:TYR376
|
4.7
|
41.4
|
1.0
|
|
HA2
|
D:GLY375
|
4.8
|
40.5
|
1.0
|
|
CA
|
A:TYR376
|
4.8
|
41.4
|
1.0
|
|
HA2
|
A:GLY375
|
4.8
|
40.5
|
1.0
|
|
HA
|
C:VAL374
|
4.8
|
39.9
|
1.0
|
|
HA
|
A:VAL374
|
4.8
|
39.9
|
1.0
|
|
O
|
C:TYR376
|
4.9
|
41.4
|
1.0
|
|
CA
|
C:VAL374
|
4.9
|
39.9
|
1.0
|
|
O
|
A:TYR376
|
4.9
|
41.4
|
1.0
|
|
CA
|
D:TYR376
|
5.0
|
41.4
|
1.0
|
|
CA
|
A:VAL374
|
5.0
|
39.9
|
1.0
|
|
HA2
|
B:GLY375
|
5.0
|
40.5
|
1.0
|
|
CA
|
B:TYR376
|
5.0
|
41.4
|
1.0
|
|
C
|
C:TYR376
|
5.0
|
41.4
|
1.0
|
|
Potassium binding site 3 out
of 4 in 8sd3
Go back to
Potassium Binding Sites List in 8sd3
Potassium binding site 3 out
of 4 in the Cryoem Structure of Rat KV2.1(1-598) Wild Type in Nanodiscs
 Mono view
 Stereo pair view
|
|
A full contact list of Potassium with other atoms in the K binding
site number 3 of Cryoem Structure of Rat KV2.1(1-598) Wild Type in Nanodiscs within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K1009
b:30.0
occ:1.00
|
O
|
A:VAL374
|
2.6
|
39.9
|
1.0
|
|
O
|
B:VAL374
|
2.7
|
39.9
|
1.0
|
|
O
|
C:VAL374
|
2.7
|
39.9
|
1.0
|
|
O
|
D:VAL374
|
2.7
|
39.9
|
1.0
|
|
O
|
A:THR373
|
2.7
|
41.9
|
1.0
|
|
O
|
C:THR373
|
2.7
|
41.9
|
1.0
|
|
O
|
B:THR373
|
2.7
|
41.9
|
1.0
|
|
O
|
D:THR373
|
2.8
|
41.9
|
1.0
|
|
HA
|
A:VAL374
|
3.3
|
39.9
|
1.0
|
|
HA
|
B:VAL374
|
3.3
|
39.9
|
1.0
|
|
K
|
A:K1008
|
3.3
|
30.0
|
1.0
|
|
HA
|
C:VAL374
|
3.3
|
39.9
|
1.0
|
|
HA
|
D:VAL374
|
3.3
|
39.9
|
1.0
|
|
C
|
A:VAL374
|
3.4
|
39.9
|
1.0
|
|
C
|
C:VAL374
|
3.5
|
39.9
|
1.0
|
|
C
|
B:VAL374
|
3.5
|
39.9
|
1.0
|
|
C
|
D:VAL374
|
3.5
|
39.9
|
1.0
|
|
K
|
C:K1007
|
3.6
|
30.0
|
1.0
|
|
C
|
A:THR373
|
3.7
|
41.9
|
1.0
|
|
CA
|
A:VAL374
|
3.8
|
39.9
|
1.0
|
|
C
|
C:THR373
|
3.8
|
41.9
|
1.0
|
|
C
|
B:THR373
|
3.8
|
41.9
|
1.0
|
|
CA
|
B:VAL374
|
3.8
|
39.9
|
1.0
|
|
CA
|
C:VAL374
|
3.8
|
39.9
|
1.0
|
|
C
|
D:THR373
|
3.8
|
41.9
|
1.0
|
|
CA
|
D:VAL374
|
3.9
|
39.9
|
1.0
|
|
N
|
A:VAL374
|
4.2
|
39.9
|
1.0
|
|
N
|
C:VAL374
|
4.3
|
39.9
|
1.0
|
|
N
|
B:VAL374
|
4.3
|
39.9
|
1.0
|
|
N
|
D:VAL374
|
4.3
|
39.9
|
1.0
|
|
HA3
|
A:GLY375
|
4.5
|
40.5
|
1.0
|
|
HA3
|
C:GLY375
|
4.5
|
40.5
|
1.0
|
|
N
|
A:GLY375
|
4.5
|
40.5
|
1.0
|
|
HA3
|
B:GLY375
|
4.5
|
40.5
|
1.0
|
|
N
|
C:GLY375
|
4.5
|
40.5
|
1.0
|
|
HA3
|
D:GLY375
|
4.5
|
40.5
|
1.0
|
|
N
|
B:GLY375
|
4.6
|
40.5
|
1.0
|
|
N
|
D:GLY375
|
4.6
|
40.5
|
1.0
|
|
HB
|
A:THR373
|
4.6
|
41.9
|
1.0
|
|
HB
|
C:THR373
|
4.6
|
41.9
|
1.0
|
|
HB
|
D:THR373
|
4.6
|
41.9
|
1.0
|
|
HB
|
B:THR373
|
4.7
|
41.9
|
1.0
|
|
HG13
|
B:VAL374
|
4.9
|
39.9
|
1.0
|
|
HG13
|
A:VAL374
|
4.9
|
39.9
|
1.0
|
|
HG13
|
C:VAL374
|
4.9
|
39.9
|
1.0
|
|
HG13
|
D:VAL374
|
4.9
|
39.9
|
1.0
|
|
CA
|
A:GLY375
|
5.0
|
40.5
|
1.0
|
|
CA
|
A:THR373
|
5.0
|
41.9
|
1.0
|
|
CA
|
C:GLY375
|
5.0
|
40.5
|
1.0
|
|
CA
|
C:THR373
|
5.0
|
41.9
|
1.0
|
|
Potassium binding site 4 out
of 4 in 8sd3
Go back to
Potassium Binding Sites List in 8sd3
Potassium binding site 4 out
of 4 in the Cryoem Structure of Rat KV2.1(1-598) Wild Type in Nanodiscs
 Mono view
 Stereo pair view
|
|
A full contact list of Potassium with other atoms in the K binding
site number 4 of Cryoem Structure of Rat KV2.1(1-598) Wild Type in Nanodiscs within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:K1007
b:30.0
occ:1.00
|
O
|
C:THR373
|
2.8
|
41.9
|
1.0
|
|
O
|
A:THR373
|
2.8
|
41.9
|
1.0
|
|
O
|
D:THR373
|
2.8
|
41.9
|
1.0
|
|
O
|
B:THR373
|
2.9
|
41.9
|
1.0
|
|
HB
|
C:THR373
|
3.0
|
41.9
|
1.0
|
|
HB
|
D:THR373
|
3.0
|
41.9
|
1.0
|
|
HB
|
A:THR373
|
3.0
|
41.9
|
1.0
|
|
HB
|
B:THR373
|
3.0
|
41.9
|
1.0
|
|
OG1
|
C:THR373
|
3.1
|
41.9
|
1.0
|
|
OG1
|
A:THR373
|
3.1
|
41.9
|
1.0
|
|
OG1
|
D:THR373
|
3.1
|
41.9
|
1.0
|
|
OG1
|
B:THR373
|
3.1
|
41.9
|
1.0
|
|
CB
|
C:THR373
|
3.5
|
41.9
|
1.0
|
|
CB
|
D:THR373
|
3.5
|
41.9
|
1.0
|
|
CB
|
A:THR373
|
3.5
|
41.9
|
1.0
|
|
CB
|
B:THR373
|
3.5
|
41.9
|
1.0
|
|
K
|
A:K1009
|
3.6
|
30.0
|
1.0
|
|
C
|
C:THR373
|
3.8
|
41.9
|
1.0
|
|
C
|
A:THR373
|
3.8
|
41.9
|
1.0
|
|
HG1
|
C:THR373
|
3.8
|
41.9
|
1.0
|
|
C
|
D:THR373
|
3.9
|
41.9
|
1.0
|
|
C
|
B:THR373
|
3.9
|
41.9
|
1.0
|
|
HG1
|
A:THR373
|
3.9
|
41.9
|
1.0
|
|
HG1
|
D:THR373
|
3.9
|
41.9
|
1.0
|
|
HG1
|
B:THR373
|
3.9
|
41.9
|
1.0
|
|
CA
|
C:THR373
|
4.3
|
41.9
|
1.0
|
|
CA
|
D:THR373
|
4.3
|
41.9
|
1.0
|
|
CA
|
A:THR373
|
4.3
|
41.9
|
1.0
|
|
CA
|
B:THR373
|
4.4
|
41.9
|
1.0
|
|
HA
|
C:VAL374
|
4.5
|
39.9
|
1.0
|
|
HA
|
A:VAL374
|
4.6
|
39.9
|
1.0
|
|
HA
|
B:VAL374
|
4.6
|
39.9
|
1.0
|
|
HA
|
D:VAL374
|
4.6
|
39.9
|
1.0
|
|
HG21
|
C:THR373
|
4.6
|
41.9
|
1.0
|
|
HG21
|
D:THR373
|
4.6
|
41.9
|
1.0
|
|
HG21
|
A:THR373
|
4.7
|
41.9
|
1.0
|
|
HG21
|
B:THR373
|
4.7
|
41.9
|
1.0
|
|
CG2
|
C:THR373
|
4.7
|
41.9
|
1.0
|
|
CG2
|
D:THR373
|
4.7
|
41.9
|
1.0
|
|
CG2
|
A:THR373
|
4.7
|
41.9
|
1.0
|
|
CG2
|
B:THR373
|
4.8
|
41.9
|
1.0
|
|
O
|
C:THR372
|
4.8
|
42.3
|
1.0
|
|
O
|
A:THR372
|
4.8
|
42.3
|
1.0
|
|
HA
|
C:THR373
|
4.8
|
41.9
|
1.0
|
|
O
|
D:THR372
|
4.8
|
42.3
|
1.0
|
|
O
|
B:THR372
|
4.8
|
42.3
|
1.0
|
|
HA
|
D:THR373
|
4.8
|
41.9
|
1.0
|
|
HA
|
A:THR373
|
4.9
|
41.9
|
1.0
|
|
HA
|
B:THR373
|
4.9
|
41.9
|
1.0
|
|
N
|
C:VAL374
|
4.9
|
39.9
|
1.0
|
|
N
|
A:VAL374
|
4.9
|
39.9
|
1.0
|
|
N
|
D:VAL374
|
4.9
|
39.9
|
1.0
|
|
N
|
B:VAL374
|
4.9
|
39.9
|
1.0
|
|
Reference:
A.I.Fernandez-Marino,
X.-F.Tan,
C.Bae,
K.Huffer,
J.Jiang,
K.J.Swartz.
Cryoem Structure of Rat KV2.1(1-598) in Nanodiscs Nature 2023.
ISSN: ESSN 1476-4687
DOI: 10.1038/S41586-023-06582-8
Page generated: Tue Aug 13 00:51:23 2024
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