Potassium in PDB 3k0d: Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex
Protein crystallography data
The structure of Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex, PDB code: 3k0d
was solved by
Y.Jiang,
M.G.Derebe,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
N/A /
1.95
|
Space group
|
I 4
|
Cell size a, b, c (Å), α, β, γ (°)
|
67.578,
67.578,
89.996,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
20.2 /
23.9
|
Potassium Binding Sites:
The binding sites of Potassium atom in the Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex
(pdb code 3k0d). This binding sites where shown within
5.0 Angstroms radius around Potassium atom.
In total 9 binding sites of Potassium where determined in the
Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex, PDB code: 3k0d:
Jump to Potassium binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
Potassium binding site 1 out
of 9 in 3k0d
Go back to
Potassium Binding Sites List in 3k0d
Potassium binding site 1 out
of 9 in the Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 1 of Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K4
b:29.4
occ:0.25
|
O
|
A:THR63
|
2.9
|
27.6
|
1.0
|
OG1
|
A:THR63
|
2.9
|
29.1
|
1.0
|
K
|
A:K5
|
3.4
|
30.1
|
0.2
|
CB
|
A:THR63
|
3.5
|
31.2
|
1.0
|
C
|
A:THR63
|
3.8
|
31.6
|
1.0
|
K
|
A:K9
|
4.3
|
77.8
|
0.2
|
CA
|
A:THR63
|
4.3
|
26.0
|
1.0
|
CG2
|
A:THR63
|
4.8
|
30.4
|
1.0
|
N
|
A:VAL64
|
4.8
|
25.6
|
1.0
|
|
Potassium binding site 2 out
of 9 in 3k0d
Go back to
Potassium Binding Sites List in 3k0d
Potassium binding site 2 out
of 9 in the Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 2 of Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K5
b:30.1
occ:0.25
|
K
|
A:K8
|
2.8
|
61.6
|
0.2
|
O
|
A:THR63
|
2.8
|
27.6
|
1.0
|
O
|
A:VAL64
|
3.1
|
24.6
|
1.0
|
K
|
A:K4
|
3.4
|
29.4
|
0.2
|
C
|
A:VAL64
|
3.7
|
31.1
|
1.0
|
C
|
A:THR63
|
4.0
|
31.6
|
1.0
|
CA
|
A:VAL64
|
4.3
|
28.4
|
1.0
|
N
|
A:GLY65
|
4.5
|
26.6
|
1.0
|
N
|
A:VAL64
|
4.6
|
25.6
|
1.0
|
CA
|
A:GLY65
|
4.7
|
27.4
|
1.0
|
|
Potassium binding site 3 out
of 9 in 3k0d
Go back to
Potassium Binding Sites List in 3k0d
Potassium binding site 3 out
of 9 in the Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 3 of Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K6
b:14.6
occ:0.25
|
K
|
A:K8
|
2.8
|
61.6
|
0.2
|
O
|
A:GLY65
|
3.1
|
27.0
|
1.0
|
O
|
A:HOH3
|
3.2
|
39.4
|
1.0
|
C
|
A:GLY65
|
4.2
|
29.7
|
1.0
|
CA
|
A:GLU66
|
4.8
|
29.7
|
1.0
|
N
|
A:GLU66
|
4.9
|
27.2
|
1.0
|
O
|
A:THR67
|
5.0
|
26.7
|
1.0
|
|
Potassium binding site 4 out
of 9 in 3k0d
Go back to
Potassium Binding Sites List in 3k0d
Potassium binding site 4 out
of 9 in the Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 4 of Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K8
b:61.6
occ:0.25
|
K
|
A:K5
|
2.8
|
30.1
|
0.2
|
K
|
A:K6
|
2.8
|
14.6
|
0.2
|
O
|
A:VAL64
|
3.2
|
24.6
|
1.0
|
O
|
A:GLY65
|
3.4
|
27.0
|
1.0
|
C
|
A:GLY65
|
3.9
|
29.7
|
1.0
|
CA
|
A:GLY65
|
4.0
|
27.4
|
1.0
|
C
|
A:VAL64
|
4.2
|
31.1
|
1.0
|
N
|
A:GLY65
|
4.5
|
26.6
|
1.0
|
N
|
A:GLU66
|
4.8
|
27.2
|
1.0
|
|
Potassium binding site 5 out
of 9 in 3k0d
Go back to
Potassium Binding Sites List in 3k0d
Potassium binding site 5 out
of 9 in the Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 5 of Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K9
b:77.8
occ:0.25
|
OG1
|
A:THR63
|
4.1
|
29.1
|
1.0
|
K
|
A:K4
|
4.3
|
29.4
|
0.2
|
|
Potassium binding site 6 out
of 9 in 3k0d
Go back to
Potassium Binding Sites List in 3k0d
Potassium binding site 6 out
of 9 in the Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 6 of Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:K1
b:31.9
occ:0.25
|
O
|
B:THR63
|
2.8
|
35.0
|
1.0
|
K
|
B:K7
|
2.8
|
67.5
|
0.2
|
O
|
B:VAL64
|
3.1
|
33.8
|
1.0
|
K
|
B:K2
|
3.4
|
34.7
|
0.2
|
C
|
B:VAL64
|
3.7
|
35.4
|
1.0
|
C
|
B:THR63
|
3.9
|
35.7
|
1.0
|
CA
|
B:VAL64
|
4.3
|
33.5
|
1.0
|
N
|
B:GLY65
|
4.4
|
35.2
|
1.0
|
N
|
B:VAL64
|
4.6
|
30.2
|
1.0
|
CA
|
B:GLY65
|
4.7
|
39.9
|
1.0
|
|
Potassium binding site 7 out
of 9 in 3k0d
Go back to
Potassium Binding Sites List in 3k0d
Potassium binding site 7 out
of 9 in the Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 7 of Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:K2
b:34.7
occ:0.25
|
O
|
B:THR63
|
2.9
|
35.0
|
1.0
|
OG1
|
B:THR63
|
2.9
|
33.4
|
1.0
|
K
|
B:K1
|
3.4
|
31.9
|
0.2
|
CB
|
B:THR63
|
3.5
|
38.6
|
1.0
|
C
|
B:THR63
|
3.8
|
35.7
|
1.0
|
CA
|
B:THR63
|
4.3
|
32.0
|
1.0
|
CG2
|
B:THR63
|
4.7
|
33.3
|
1.0
|
N
|
B:VAL64
|
4.8
|
30.2
|
1.0
|
|
Potassium binding site 8 out
of 9 in 3k0d
Go back to
Potassium Binding Sites List in 3k0d
Potassium binding site 8 out
of 9 in the Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 8 of Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:K3
b:25.3
occ:0.25
|
O
|
B:HOH138
|
2.8
|
51.9
|
1.0
|
K
|
B:K7
|
3.0
|
67.5
|
0.2
|
O
|
B:GLY65
|
3.1
|
45.6
|
1.0
|
C
|
B:GLY65
|
4.2
|
39.5
|
1.0
|
CA
|
B:GLU66
|
4.8
|
39.4
|
1.0
|
N
|
B:GLU66
|
4.9
|
39.0
|
1.0
|
O
|
B:THR67
|
5.0
|
43.3
|
1.0
|
|
Potassium binding site 9 out
of 9 in 3k0d
Go back to
Potassium Binding Sites List in 3k0d
Potassium binding site 9 out
of 9 in the Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex
 Mono view
 Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 9 of Crystal Structure of Cng Mimicking Nak Mutant, Nak-Etpp, K+ Complex within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:K7
b:67.5
occ:0.25
|
K
|
B:K1
|
2.8
|
31.9
|
0.2
|
K
|
B:K3
|
3.0
|
25.3
|
0.2
|
O
|
B:VAL64
|
3.1
|
33.8
|
1.0
|
O
|
B:GLY65
|
3.5
|
45.6
|
1.0
|
C
|
B:GLY65
|
3.9
|
39.5
|
1.0
|
CA
|
B:GLY65
|
3.9
|
39.9
|
1.0
|
C
|
B:VAL64
|
4.1
|
35.4
|
1.0
|
N
|
B:GLY65
|
4.5
|
35.2
|
1.0
|
N
|
B:GLU66
|
4.8
|
39.0
|
1.0
|
O
|
B:THR63
|
5.0
|
35.0
|
1.0
|
|
Reference:
M.G.Derebe,
W.Zeng,
Y.Li,
A.Alam,
Y.Jiang.
Structural Studies of Ion Permeation and CA2+ Blockage of A Bacterial Channel Mimicking the Cyclic Nucleotide-Gated Channel Pore. Proc.Natl.Acad.Sci.Usa V. 108 592 2011.
ISSN: ISSN 0027-8424
PubMed: 21187429
DOI: 10.1073/PNAS.1013643108
Page generated: Mon Aug 12 08:40:38 2024
|