Potassium in PDB 7xzo: Formate-Tetrahydrofolate Ligase in Complex with Atp
Enzymatic activity of Formate-Tetrahydrofolate Ligase in Complex with Atp
All present enzymatic activity of Formate-Tetrahydrofolate Ligase in Complex with Atp:
6.3.4.3;
Protein crystallography data
The structure of Formate-Tetrahydrofolate Ligase in Complex with Atp, PDB code: 7xzo
was solved by
C.L.Fang,
Y.Zhang,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
30.03 /
2.31
|
Space group
|
C 1 2 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
215.28,
115.1,
106.53,
90,
93.15,
90
|
R / Rfree (%)
|
25.2 /
29
|
Potassium Binding Sites:
The binding sites of Potassium atom in the Formate-Tetrahydrofolate Ligase in Complex with Atp
(pdb code 7xzo). This binding sites where shown within
5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the
Formate-Tetrahydrofolate Ligase in Complex with Atp, PDB code: 7xzo:
Jump to Potassium binding site number:
1;
2;
3;
4;
Potassium binding site 1 out
of 4 in 7xzo
Go back to
Potassium Binding Sites List in 7xzo
Potassium binding site 1 out
of 4 in the Formate-Tetrahydrofolate Ligase in Complex with Atp
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 1 of Formate-Tetrahydrofolate Ligase in Complex with Atp within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K601
b:38.4
occ:1.00
|
O
|
A:PRO97
|
2.8
|
39.8
|
1.0
|
O
|
A:LEU125
|
2.8
|
28.2
|
1.0
|
O
|
A:ILE123
|
2.9
|
38.7
|
1.0
|
O
|
A:HOH716
|
2.9
|
38.8
|
1.0
|
OE2
|
A:GLU96
|
3.2
|
39.4
|
1.0
|
C
|
A:PRO97
|
3.7
|
35.9
|
1.0
|
C
|
A:LEU125
|
3.9
|
28.1
|
1.0
|
CG
|
A:GLU96
|
4.0
|
39.7
|
1.0
|
CD
|
A:GLU96
|
4.0
|
42.6
|
1.0
|
C
|
A:ILE123
|
4.0
|
35.0
|
1.0
|
O
|
A:HOH705
|
4.0
|
27.8
|
1.0
|
C
|
A:ASN124
|
4.1
|
39.1
|
1.0
|
N
|
A:LEU125
|
4.1
|
35.2
|
1.0
|
N
|
A:MET99
|
4.2
|
41.5
|
1.0
|
C
|
A:SER98
|
4.3
|
34.0
|
1.0
|
O
|
A:ASN124
|
4.3
|
42.5
|
1.0
|
CA
|
A:SER98
|
4.3
|
38.1
|
1.0
|
N
|
A:SER98
|
4.4
|
35.2
|
1.0
|
CA
|
A:ASN124
|
4.5
|
37.4
|
1.0
|
CG
|
A:MET131
|
4.5
|
32.2
|
1.0
|
CA
|
A:LEU125
|
4.5
|
34.1
|
1.0
|
CB
|
A:PHE127
|
4.5
|
28.8
|
1.0
|
CA
|
A:MET99
|
4.7
|
37.3
|
1.0
|
CB
|
A:MET99
|
4.7
|
33.6
|
1.0
|
N
|
A:ASN124
|
4.7
|
37.4
|
1.0
|
CA
|
A:PRO97
|
4.7
|
32.9
|
1.0
|
N
|
A:PRO97
|
4.8
|
29.9
|
1.0
|
O
|
A:SER98
|
4.8
|
36.5
|
1.0
|
CD
|
A:PRO97
|
4.9
|
38.1
|
1.0
|
C
|
A:HIS126
|
4.9
|
27.1
|
1.0
|
CB
|
A:PRO97
|
4.9
|
30.8
|
1.0
|
N
|
A:HIS126
|
4.9
|
25.2
|
1.0
|
N
|
A:PHE127
|
5.0
|
25.3
|
1.0
|
O
|
A:ASP122
|
5.0
|
32.1
|
1.0
|
|
Potassium binding site 2 out
of 4 in 7xzo
Go back to
Potassium Binding Sites List in 7xzo
Potassium binding site 2 out
of 4 in the Formate-Tetrahydrofolate Ligase in Complex with Atp
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 2 of Formate-Tetrahydrofolate Ligase in Complex with Atp within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:K601
b:34.0
occ:1.00
|
O
|
B:LEU125
|
2.8
|
35.4
|
1.0
|
O
|
B:PRO97
|
2.8
|
35.1
|
1.0
|
O
|
B:ILE123
|
2.8
|
38.9
|
1.0
|
OE2
|
B:GLU96
|
3.1
|
32.0
|
1.0
|
C
|
B:PRO97
|
3.8
|
33.8
|
1.0
|
CD
|
B:GLU96
|
3.9
|
36.1
|
1.0
|
C
|
B:LEU125
|
3.9
|
32.0
|
1.0
|
C
|
B:ILE123
|
3.9
|
36.6
|
1.0
|
C
|
B:ASN124
|
3.9
|
41.2
|
1.0
|
CG
|
B:GLU96
|
4.0
|
30.7
|
1.0
|
N
|
B:MET99
|
4.0
|
36.2
|
1.0
|
O
|
B:HOH706
|
4.0
|
22.0
|
1.0
|
O
|
B:ASN124
|
4.1
|
31.7
|
1.0
|
N
|
B:LEU125
|
4.1
|
38.7
|
1.0
|
C
|
B:SER98
|
4.2
|
30.6
|
1.0
|
CA
|
B:ASN124
|
4.4
|
35.7
|
1.0
|
CA
|
B:SER98
|
4.4
|
33.7
|
1.0
|
N
|
B:SER98
|
4.5
|
36.6
|
1.0
|
CA
|
B:MET99
|
4.5
|
35.8
|
1.0
|
CB
|
B:MET99
|
4.5
|
35.2
|
1.0
|
CA
|
B:LEU125
|
4.5
|
34.1
|
1.0
|
CB
|
B:PHE127
|
4.6
|
28.8
|
1.0
|
N
|
B:ASN124
|
4.6
|
39.5
|
1.0
|
CG
|
B:PRO97
|
4.6
|
27.6
|
1.0
|
CG
|
B:MET131
|
4.6
|
28.8
|
1.0
|
CA
|
B:PRO97
|
4.8
|
26.7
|
1.0
|
O
|
B:SER98
|
4.8
|
36.2
|
1.0
|
N
|
B:PRO97
|
4.8
|
27.9
|
1.0
|
CD
|
B:PRO97
|
4.9
|
29.1
|
1.0
|
C
|
B:HIS126
|
4.9
|
30.5
|
1.0
|
N
|
B:PHE127
|
4.9
|
30.0
|
1.0
|
N
|
B:HIS126
|
5.0
|
30.0
|
1.0
|
|
Potassium binding site 3 out
of 4 in 7xzo
Go back to
Potassium Binding Sites List in 7xzo
Potassium binding site 3 out
of 4 in the Formate-Tetrahydrofolate Ligase in Complex with Atp
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 3 of Formate-Tetrahydrofolate Ligase in Complex with Atp within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:K601
b:33.5
occ:1.00
|
O
|
C:PRO97
|
2.7
|
33.8
|
1.0
|
O
|
C:LEU125
|
2.7
|
35.9
|
1.0
|
O
|
C:ILE123
|
2.8
|
31.9
|
1.0
|
OE2
|
C:GLU96
|
3.1
|
32.1
|
1.0
|
C
|
C:PRO97
|
3.7
|
34.9
|
1.0
|
CG
|
C:GLU96
|
3.8
|
33.7
|
1.0
|
CD
|
C:GLU96
|
3.9
|
39.2
|
1.0
|
C
|
C:ASN124
|
3.9
|
36.1
|
1.0
|
C
|
C:LEU125
|
3.9
|
28.0
|
1.0
|
C
|
C:ILE123
|
4.0
|
36.6
|
1.0
|
O
|
C:ASN124
|
4.0
|
43.0
|
1.0
|
N
|
C:LEU125
|
4.1
|
38.6
|
1.0
|
N
|
C:MET99
|
4.3
|
40.3
|
1.0
|
CA
|
C:ASN124
|
4.3
|
39.6
|
1.0
|
C
|
C:SER98
|
4.4
|
39.1
|
1.0
|
CA
|
C:SER98
|
4.4
|
39.1
|
1.0
|
CB
|
C:PHE127
|
4.5
|
30.9
|
1.0
|
CA
|
C:LEU125
|
4.5
|
37.4
|
1.0
|
N
|
C:SER98
|
4.5
|
37.9
|
1.0
|
N
|
C:ASN124
|
4.6
|
41.3
|
1.0
|
CA
|
C:PRO97
|
4.7
|
33.3
|
1.0
|
N
|
C:PRO97
|
4.7
|
35.5
|
1.0
|
CD
|
C:PRO97
|
4.7
|
36.2
|
1.0
|
CE
|
C:MET131
|
4.8
|
40.9
|
1.0
|
CA
|
C:MET99
|
4.8
|
38.2
|
1.0
|
C
|
C:HIS126
|
4.8
|
25.7
|
1.0
|
O
|
C:SER98
|
4.9
|
35.7
|
1.0
|
CB
|
C:PRO97
|
4.9
|
35.9
|
1.0
|
N
|
C:HIS126
|
4.9
|
26.8
|
1.0
|
N
|
C:PHE127
|
5.0
|
26.4
|
1.0
|
O
|
C:ASP122
|
5.0
|
33.8
|
1.0
|
CB
|
C:MET99
|
5.0
|
36.2
|
1.0
|
|
Potassium binding site 4 out
of 4 in 7xzo
Go back to
Potassium Binding Sites List in 7xzo
Potassium binding site 4 out
of 4 in the Formate-Tetrahydrofolate Ligase in Complex with Atp
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 4 of Formate-Tetrahydrofolate Ligase in Complex with Atp within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:K601
b:30.6
occ:1.00
|
O
|
D:PRO97
|
2.8
|
36.5
|
1.0
|
O
|
D:LEU125
|
2.8
|
34.9
|
1.0
|
O
|
D:ILE123
|
2.8
|
34.3
|
1.0
|
OE2
|
D:GLU96
|
2.9
|
31.1
|
1.0
|
CG
|
D:GLU96
|
3.7
|
39.3
|
1.0
|
CD
|
D:GLU96
|
3.7
|
39.8
|
1.0
|
O
|
D:ASN124
|
3.8
|
40.5
|
1.0
|
C
|
D:ASN124
|
3.8
|
40.5
|
1.0
|
C
|
D:LEU125
|
3.9
|
28.3
|
1.0
|
C
|
D:PRO97
|
4.0
|
41.8
|
1.0
|
C
|
D:ILE123
|
4.0
|
34.6
|
1.0
|
N
|
D:LEU125
|
4.1
|
37.0
|
1.0
|
CA
|
D:ASN124
|
4.3
|
39.6
|
1.0
|
N
|
D:MET99
|
4.4
|
41.4
|
1.0
|
CB
|
D:PHE127
|
4.4
|
28.2
|
1.0
|
CA
|
D:LEU125
|
4.5
|
34.5
|
1.0
|
C
|
D:SER98
|
4.6
|
36.9
|
1.0
|
N
|
D:ASN124
|
4.6
|
33.1
|
1.0
|
CE
|
D:MET131
|
4.6
|
38.5
|
1.0
|
N
|
D:PRO97
|
4.7
|
35.5
|
1.0
|
CD
|
D:PRO97
|
4.7
|
36.0
|
1.0
|
CB
|
D:MET99
|
4.8
|
37.5
|
1.0
|
C
|
D:HIS126
|
4.8
|
27.7
|
1.0
|
CA
|
D:PRO97
|
4.8
|
31.0
|
1.0
|
CA
|
D:SER98
|
4.8
|
41.3
|
1.0
|
N
|
D:SER98
|
4.9
|
42.1
|
1.0
|
N
|
D:HIS126
|
4.9
|
30.9
|
1.0
|
CA
|
D:MET99
|
4.9
|
36.9
|
1.0
|
O
|
D:ASP122
|
4.9
|
34.1
|
1.0
|
OE1
|
D:GLU96
|
4.9
|
34.1
|
1.0
|
O
|
D:HIS126
|
4.9
|
27.6
|
1.0
|
N
|
D:PHE127
|
4.9
|
24.4
|
1.0
|
O
|
D:SER98
|
5.0
|
37.9
|
1.0
|
|
Reference:
J.C.Yan,
C.L.Fang,
Y.Gu,
Y.Zhang,
W.H.Jiang.
Berberine Targets Ftfl to Suppress Intestinal Bacteria That Promote Colorectal Carcinogenesis To Be Published.
Page generated: Mon Aug 12 21:38:56 2024
|