Potassium in PDB 7vcm: Crystal Structure of GINKO1
Protein crystallography data
The structure of Crystal Structure of GINKO1, PDB code: 7vcm
was solved by
Y.Wen,
R.E.Campbell,
M.J.Lemieux,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
42.08 /
1.85
|
Space group
|
P 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
46.827,
49.319,
83.683,
89.96,
89.97,
80.95
|
R / Rfree (%)
|
19.5 /
22.5
|
Potassium Binding Sites:
The binding sites of Potassium atom in the Crystal Structure of GINKO1
(pdb code 7vcm). This binding sites where shown within
5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the
Crystal Structure of GINKO1, PDB code: 7vcm:
Jump to Potassium binding site number:
1;
2;
Potassium binding site 1 out
of 2 in 7vcm
Go back to
Potassium Binding Sites List in 7vcm
Potassium binding site 1 out
of 2 in the Crystal Structure of GINKO1
![](/pictures/K/pdb/vc/7vcm-K-sphere_01.jpg) Mono view
![](/pictures/K/pdb/vc/7vcm-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 Crystal Structure of GINKO1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K401
b:12.8
occ:1.00
|
O
|
A:ALA157
|
2.6
|
17.9
|
1.0
|
O
|
A:GLY222
|
2.7
|
9.4
|
1.0
|
O
|
A:VAL154
|
2.8
|
13.1
|
1.0
|
O
|
A:ILE227
|
2.8
|
13.1
|
1.0
|
O
|
A:ILE224
|
2.8
|
13.3
|
1.0
|
O
|
A:HOH752
|
3.1
|
8.5
|
1.0
|
O
|
A:LYS155
|
3.2
|
18.2
|
1.0
|
C
|
A:ALA157
|
3.7
|
15.5
|
1.0
|
C
|
A:ILE224
|
3.7
|
16.8
|
1.0
|
C
|
A:LYS155
|
3.7
|
19.4
|
1.0
|
C
|
A:VAL154
|
3.8
|
15.0
|
1.0
|
N
|
A:ILE224
|
3.8
|
12.9
|
1.0
|
C
|
A:GLY222
|
3.9
|
10.0
|
1.0
|
C
|
A:ILE227
|
3.9
|
16.2
|
1.0
|
CB
|
A:PHE153
|
4.0
|
12.2
|
1.0
|
CA
|
A:LYS155
|
4.0
|
16.6
|
1.0
|
N
|
A:ALA157
|
4.1
|
16.6
|
1.0
|
N
|
A:ILE227
|
4.2
|
19.7
|
1.0
|
CA
|
A:ALA157
|
4.4
|
15.8
|
1.0
|
CA
|
A:ASN223
|
4.4
|
9.1
|
1.0
|
N
|
A:LYS155
|
4.4
|
17.8
|
1.0
|
C
|
A:ASN223
|
4.4
|
10.4
|
1.0
|
CA
|
A:ILE224
|
4.4
|
16.0
|
1.0
|
CA
|
A:ILE227
|
4.5
|
16.1
|
1.0
|
CB
|
A:ILE227
|
4.5
|
17.2
|
1.0
|
N
|
A:SER225
|
4.5
|
19.0
|
1.0
|
N
|
A:ASN223
|
4.6
|
9.8
|
1.0
|
CB
|
A:ALA157
|
4.6
|
14.2
|
1.0
|
CA
|
A:SER225
|
4.6
|
20.9
|
1.0
|
N
|
A:ASP156
|
4.6
|
15.9
|
1.0
|
N
|
A:VAL154
|
4.7
|
15.1
|
1.0
|
N
|
A:GLY226
|
4.7
|
17.3
|
1.0
|
N
|
A:GLY158
|
4.7
|
17.8
|
1.0
|
C
|
A:PHE153
|
4.7
|
17.9
|
1.0
|
CA
|
A:VAL154
|
4.9
|
17.8
|
1.0
|
CG
|
A:PHE153
|
4.9
|
10.9
|
1.0
|
C
|
A:ASP156
|
4.9
|
23.6
|
1.0
|
CA
|
A:GLY158
|
4.9
|
18.9
|
1.0
|
CA
|
A:GLY222
|
5.0
|
10.8
|
1.0
|
|
Potassium binding site 2 out
of 2 in 7vcm
Go back to
Potassium Binding Sites List in 7vcm
Potassium binding site 2 out
of 2 in the Crystal Structure of GINKO1
![](/pictures/K/pdb/vc/7vcm-K-sphere_02.jpg) Mono view
![](/pictures/K/pdb/vc/7vcm-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 Crystal Structure of GINKO1 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:K401
b:13.3
occ:1.00
|
O
|
B:ALA157
|
2.6
|
17.3
|
1.0
|
O
|
B:GLY222
|
2.7
|
12.8
|
1.0
|
O
|
B:VAL154
|
2.8
|
14.2
|
1.0
|
O
|
B:ILE227
|
2.8
|
15.4
|
1.0
|
O
|
B:ILE224
|
2.8
|
17.2
|
1.0
|
O
|
B:HOH736
|
3.1
|
11.2
|
1.0
|
O
|
B:LYS155
|
3.2
|
21.1
|
1.0
|
C
|
B:ALA157
|
3.7
|
14.9
|
1.0
|
C
|
B:ILE224
|
3.7
|
16.9
|
1.0
|
C
|
B:LYS155
|
3.7
|
21.5
|
1.0
|
C
|
B:VAL154
|
3.8
|
17.5
|
1.0
|
N
|
B:ILE224
|
3.9
|
14.6
|
1.0
|
C
|
B:ILE227
|
3.9
|
18.8
|
1.0
|
C
|
B:GLY222
|
4.0
|
13.6
|
1.0
|
CB
|
B:PHE153
|
4.0
|
13.9
|
1.0
|
CA
|
B:LYS155
|
4.0
|
18.6
|
1.0
|
N
|
B:ALA157
|
4.2
|
17.8
|
1.0
|
N
|
B:ILE227
|
4.2
|
18.6
|
1.0
|
CA
|
B:ALA157
|
4.3
|
18.1
|
1.0
|
N
|
B:LYS155
|
4.4
|
17.7
|
1.0
|
CA
|
B:ASN223
|
4.4
|
10.0
|
1.0
|
CA
|
B:ILE227
|
4.4
|
18.8
|
1.0
|
CA
|
B:ILE224
|
4.5
|
17.9
|
1.0
|
C
|
B:ASN223
|
4.5
|
12.3
|
1.0
|
CB
|
B:ILE227
|
4.5
|
19.1
|
1.0
|
N
|
B:SER225
|
4.5
|
20.8
|
1.0
|
CB
|
B:ALA157
|
4.5
|
17.4
|
1.0
|
CA
|
B:SER225
|
4.6
|
22.2
|
1.0
|
N
|
B:ASP156
|
4.6
|
18.2
|
1.0
|
N
|
B:GLY226
|
4.6
|
20.7
|
1.0
|
N
|
B:VAL154
|
4.7
|
15.4
|
1.0
|
N
|
B:ASN223
|
4.7
|
11.0
|
1.0
|
N
|
B:GLY158
|
4.7
|
19.2
|
1.0
|
C
|
B:PHE153
|
4.7
|
19.7
|
1.0
|
CA
|
B:GLY158
|
4.9
|
19.6
|
1.0
|
CA
|
B:VAL154
|
4.9
|
18.6
|
1.0
|
CG
|
B:PHE153
|
4.9
|
12.7
|
1.0
|
C
|
B:ASP156
|
4.9
|
24.2
|
1.0
|
|
Reference:
Y.Wen,
R.E.Campbell,
M.J.Lemieux.
Crystal Structure of GINKO1 To Be Published.
Page generated: Mon Aug 12 21:26:37 2024
|