Potassium in PDB 7pqu: Ligand-Bound Human KV3.1 Cryo-Em Structure (Lu AG00563)
Potassium Binding Sites:
The binding sites of Potassium atom in the Ligand-Bound Human KV3.1 Cryo-Em Structure (Lu AG00563)
(pdb code 7pqu). This binding sites where shown within
5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the
Ligand-Bound Human KV3.1 Cryo-Em Structure (Lu AG00563), PDB code: 7pqu:
Jump to Potassium binding site number:
1;
2;
3;
4;
Potassium binding site 1 out
of 4 in 7pqu
Go back to
Potassium Binding Sites List in 7pqu
Potassium binding site 1 out
of 4 in the Ligand-Bound Human KV3.1 Cryo-Em Structure (Lu AG00563)
![](/pictures/K/pdb/pq/7pqu-K-sphere_01.jpg) Mono view
![](/pictures/K/pdb/pq/7pqu-K-sphere_01_stereo.jpg) Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 1 of Ligand-Bound Human KV3.1 Cryo-Em Structure (Lu AG00563) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K602
b:70.5
occ:1.00
|
O
|
D:TYR403
|
2.8
|
56.0
|
1.0
|
O
|
C:TYR403
|
2.8
|
56.0
|
1.0
|
O
|
A:TYR403
|
2.8
|
56.0
|
1.0
|
O
|
A:GLY402
|
2.8
|
47.6
|
1.0
|
O
|
C:GLY402
|
2.8
|
47.6
|
1.0
|
O
|
B:GLY402
|
2.8
|
47.6
|
1.0
|
O
|
B:TYR403
|
2.8
|
56.0
|
1.0
|
O
|
D:GLY402
|
2.8
|
47.6
|
1.0
|
K
|
A:K603
|
2.8
|
63.0
|
1.0
|
C
|
D:TYR403
|
3.7
|
56.0
|
1.0
|
C
|
C:TYR403
|
3.7
|
56.0
|
1.0
|
C
|
A:TYR403
|
3.7
|
56.0
|
1.0
|
C
|
B:TYR403
|
3.7
|
56.0
|
1.0
|
C
|
A:GLY402
|
3.9
|
47.6
|
1.0
|
C
|
C:GLY402
|
3.9
|
47.6
|
1.0
|
C
|
B:GLY402
|
3.9
|
47.6
|
1.0
|
C
|
D:GLY402
|
3.9
|
47.6
|
1.0
|
CA
|
C:TYR403
|
4.1
|
56.0
|
1.0
|
CA
|
D:TYR403
|
4.1
|
56.0
|
1.0
|
CA
|
A:TYR403
|
4.1
|
56.0
|
1.0
|
CA
|
B:TYR403
|
4.1
|
56.0
|
1.0
|
N
|
C:TYR403
|
4.5
|
56.0
|
1.0
|
N
|
A:TYR403
|
4.5
|
56.0
|
1.0
|
N
|
D:TYR403
|
4.5
|
56.0
|
1.0
|
N
|
B:TYR403
|
4.5
|
56.0
|
1.0
|
N
|
D:GLY404
|
4.7
|
60.8
|
1.0
|
N
|
A:GLY404
|
4.7
|
60.8
|
1.0
|
N
|
C:GLY404
|
4.7
|
60.8
|
1.0
|
N
|
B:GLY404
|
4.7
|
60.8
|
1.0
|
O
|
B:LEU401
|
4.9
|
45.4
|
1.0
|
O
|
C:LEU401
|
4.9
|
45.4
|
1.0
|
O
|
A:LEU401
|
4.9
|
45.4
|
1.0
|
O
|
D:LEU401
|
4.9
|
45.4
|
1.0
|
|
Potassium binding site 2 out
of 4 in 7pqu
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Potassium Binding Sites List in 7pqu
Potassium binding site 2 out
of 4 in the Ligand-Bound Human KV3.1 Cryo-Em Structure (Lu AG00563)
![](/pictures/K/pdb/pq/7pqu-K-sphere_02.jpg) Mono view
![](/pictures/K/pdb/pq/7pqu-K-sphere_02_stereo.jpg) Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 2 of Ligand-Bound Human KV3.1 Cryo-Em Structure (Lu AG00563) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K603
b:63.0
occ:1.00
|
O
|
C:LEU401
|
2.8
|
45.4
|
1.0
|
O
|
A:LEU401
|
2.8
|
45.4
|
1.0
|
O
|
B:LEU401
|
2.8
|
45.4
|
1.0
|
O
|
D:LEU401
|
2.8
|
45.4
|
1.0
|
K
|
A:K602
|
2.8
|
70.5
|
1.0
|
O
|
D:GLY402
|
2.9
|
47.6
|
1.0
|
O
|
C:GLY402
|
2.9
|
47.6
|
1.0
|
O
|
A:GLY402
|
2.9
|
47.6
|
1.0
|
O
|
B:GLY402
|
3.0
|
47.6
|
1.0
|
K
|
A:K604
|
3.2
|
45.1
|
1.0
|
C
|
D:GLY402
|
3.8
|
47.6
|
1.0
|
C
|
C:GLY402
|
3.8
|
47.6
|
1.0
|
C
|
A:GLY402
|
3.8
|
47.6
|
1.0
|
C
|
B:GLY402
|
3.8
|
47.6
|
1.0
|
C
|
C:LEU401
|
4.0
|
45.4
|
1.0
|
C
|
A:LEU401
|
4.0
|
45.4
|
1.0
|
C
|
B:LEU401
|
4.0
|
45.4
|
1.0
|
C
|
D:LEU401
|
4.0
|
45.4
|
1.0
|
CA
|
D:GLY402
|
4.2
|
47.6
|
1.0
|
CA
|
A:GLY402
|
4.2
|
47.6
|
1.0
|
CA
|
C:GLY402
|
4.2
|
47.6
|
1.0
|
CA
|
B:GLY402
|
4.2
|
47.6
|
1.0
|
N
|
C:GLY402
|
4.6
|
47.6
|
1.0
|
N
|
A:GLY402
|
4.6
|
47.6
|
1.0
|
N
|
D:GLY402
|
4.6
|
47.6
|
1.0
|
N
|
B:GLY402
|
4.6
|
47.6
|
1.0
|
N
|
D:TYR403
|
4.8
|
56.0
|
1.0
|
N
|
C:TYR403
|
4.8
|
56.0
|
1.0
|
N
|
A:TYR403
|
4.8
|
56.0
|
1.0
|
N
|
B:TYR403
|
4.9
|
56.0
|
1.0
|
|
Potassium binding site 3 out
of 4 in 7pqu
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Potassium Binding Sites List in 7pqu
Potassium binding site 3 out
of 4 in the Ligand-Bound Human KV3.1 Cryo-Em Structure (Lu AG00563)
![](/pictures/K/pdb/pq/7pqu-K-sphere_03.jpg) Mono view
![](/pictures/K/pdb/pq/7pqu-K-sphere_03_stereo.jpg) Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 3 of Ligand-Bound Human KV3.1 Cryo-Em Structure (Lu AG00563) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K604
b:45.1
occ:1.00
|
K
|
A:K605
|
2.9
|
52.9
|
1.0
|
O
|
D:LEU401
|
3.1
|
45.4
|
1.0
|
O
|
C:LEU401
|
3.1
|
45.4
|
1.0
|
O
|
A:LEU401
|
3.1
|
45.4
|
1.0
|
O
|
B:LEU401
|
3.1
|
45.4
|
1.0
|
O
|
C:THR400
|
3.2
|
48.4
|
1.0
|
O
|
A:THR400
|
3.2
|
48.4
|
1.0
|
O
|
B:THR400
|
3.2
|
48.4
|
1.0
|
O
|
D:THR400
|
3.2
|
48.4
|
1.0
|
K
|
A:K603
|
3.2
|
63.0
|
1.0
|
C
|
D:LEU401
|
3.9
|
45.4
|
1.0
|
C
|
C:LEU401
|
3.9
|
45.4
|
1.0
|
C
|
A:LEU401
|
3.9
|
45.4
|
1.0
|
C
|
B:LEU401
|
3.9
|
45.4
|
1.0
|
C
|
A:THR400
|
4.1
|
48.4
|
1.0
|
C
|
C:THR400
|
4.1
|
48.4
|
1.0
|
C
|
B:THR400
|
4.1
|
48.4
|
1.0
|
C
|
D:THR400
|
4.1
|
48.4
|
1.0
|
CA
|
C:LEU401
|
4.1
|
45.4
|
1.0
|
CA
|
D:LEU401
|
4.1
|
45.4
|
1.0
|
CA
|
A:LEU401
|
4.1
|
45.4
|
1.0
|
CA
|
B:LEU401
|
4.2
|
45.4
|
1.0
|
N
|
C:LEU401
|
4.6
|
45.4
|
1.0
|
N
|
A:LEU401
|
4.6
|
45.4
|
1.0
|
N
|
D:LEU401
|
4.6
|
45.4
|
1.0
|
N
|
B:LEU401
|
4.6
|
45.4
|
1.0
|
N
|
D:GLY402
|
5.0
|
47.6
|
1.0
|
N
|
A:GLY402
|
5.0
|
47.6
|
1.0
|
N
|
C:GLY402
|
5.0
|
47.6
|
1.0
|
|
Potassium binding site 4 out
of 4 in 7pqu
Go back to
Potassium Binding Sites List in 7pqu
Potassium binding site 4 out
of 4 in the Ligand-Bound Human KV3.1 Cryo-Em Structure (Lu AG00563)
![](/pictures/K/pdb/pq/7pqu-K-sphere_04.jpg) Mono view
![](/pictures/K/pdb/pq/7pqu-K-sphere_04_stereo.jpg) Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 4 of Ligand-Bound Human KV3.1 Cryo-Em Structure (Lu AG00563) within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K605
b:52.9
occ:1.00
|
O
|
D:THR400
|
2.7
|
48.4
|
1.0
|
O
|
A:THR400
|
2.8
|
48.4
|
1.0
|
O
|
C:THR400
|
2.8
|
48.4
|
1.0
|
O
|
B:THR400
|
2.8
|
48.4
|
1.0
|
K
|
A:K604
|
2.9
|
45.1
|
1.0
|
C
|
D:THR400
|
3.9
|
48.4
|
1.0
|
C
|
A:THR400
|
3.9
|
48.4
|
1.0
|
C
|
C:THR400
|
3.9
|
48.4
|
1.0
|
C
|
B:THR400
|
4.0
|
48.4
|
1.0
|
CB
|
A:THR400
|
4.1
|
48.4
|
1.0
|
CB
|
B:THR400
|
4.1
|
48.4
|
1.0
|
OG1
|
A:THR400
|
4.1
|
48.4
|
1.0
|
OG1
|
B:THR400
|
4.1
|
48.4
|
1.0
|
OG1
|
C:THR400
|
4.1
|
48.4
|
1.0
|
CB
|
D:THR400
|
4.1
|
48.4
|
1.0
|
CB
|
C:THR400
|
4.1
|
48.4
|
1.0
|
OG1
|
D:THR400
|
4.1
|
48.4
|
1.0
|
CA
|
D:THR400
|
4.7
|
48.4
|
1.0
|
CA
|
A:THR400
|
4.7
|
48.4
|
1.0
|
CA
|
C:THR400
|
4.7
|
48.4
|
1.0
|
CA
|
B:THR400
|
4.7
|
48.4
|
1.0
|
N
|
D:LEU401
|
5.0
|
45.4
|
1.0
|
N
|
C:LEU401
|
5.0
|
45.4
|
1.0
|
N
|
A:LEU401
|
5.0
|
45.4
|
1.0
|
N
|
B:LEU401
|
5.0
|
45.4
|
1.0
|
|
Reference:
M.Botte,
S.Huber,
D.Bucher,
J.K.Klint,
D.Rodriguez,
L.Tagmose,
M.Chami,
R.Cheng,
M.Hennig,
W.Abdul Rahman.
Apo and Ligand-Bound High Resolution Cryo-Em Structures of the Human KV3.1 Channel Reveal A Novel Binding Site For Positive Modulators PNAS Nexus 2022.
ISSN: ISSN 2752-6542
DOI: 10.1093/PNASNEXUS/PGAC083
Page generated: Mon Aug 12 19:56:57 2024
|