Potassium in PDB 8v4a: Proteus Vulgaris Tryptophan Indole-Lyase Complexed with L-Ethionine
Enzymatic activity of Proteus Vulgaris Tryptophan Indole-Lyase Complexed with L-Ethionine
All present enzymatic activity of Proteus Vulgaris Tryptophan Indole-Lyase Complexed with L-Ethionine:
4.1.99.1;
Protein crystallography data
The structure of Proteus Vulgaris Tryptophan Indole-Lyase Complexed with L-Ethionine, PDB code: 8v4a
was solved by
R.S.Phillips,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
62.76 /
1.96
|
Space group
|
P 21 21 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
150.75,
207.08,
60.83,
90,
90,
90
|
R / Rfree (%)
|
17.7 /
22.4
|
Potassium Binding Sites:
The binding sites of Potassium atom in the Proteus Vulgaris Tryptophan Indole-Lyase Complexed with L-Ethionine
(pdb code 8v4a). This binding sites where shown within
5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the
Proteus Vulgaris Tryptophan Indole-Lyase Complexed with L-Ethionine, PDB code: 8v4a:
Jump to Potassium binding site number:
1;
2;
3;
4;
Potassium binding site 1 out
of 4 in 8v4a
Go back to
Potassium Binding Sites List in 8v4a
Potassium binding site 1 out
of 4 in the Proteus Vulgaris Tryptophan Indole-Lyase Complexed with L-Ethionine
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 1 of Proteus Vulgaris Tryptophan Indole-Lyase Complexed with L-Ethionine within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K501
b:26.0
occ:1.00
|
O
|
A:HOH681
|
2.8
|
25.1
|
1.0
|
O
|
A:GLY53
|
2.8
|
22.1
|
1.0
|
O
|
B:HOH647
|
2.8
|
23.6
|
1.0
|
OE1
|
B:GLU70
|
2.8
|
24.3
|
1.0
|
O
|
A:ASN271
|
3.0
|
20.5
|
1.0
|
O
|
A:HOH735
|
3.0
|
22.9
|
1.0
|
O
|
B:GLU70
|
3.1
|
23.3
|
1.0
|
C
|
A:GLY53
|
3.5
|
23.6
|
1.0
|
CA
|
A:GLY53
|
3.8
|
21.5
|
1.0
|
CB
|
B:GLU70
|
3.8
|
24.5
|
1.0
|
C
|
B:GLU70
|
3.9
|
26.3
|
1.0
|
C
|
A:ASN271
|
4.0
|
24.7
|
1.0
|
CB
|
A:ASN271
|
4.0
|
18.6
|
1.0
|
CD
|
B:GLU70
|
4.0
|
25.3
|
1.0
|
CA
|
B:GLU70
|
4.0
|
21.1
|
1.0
|
CA
|
A:ASN271
|
4.2
|
22.9
|
1.0
|
N
|
B:GLY306
|
4.4
|
23.3
|
1.0
|
O
|
B:HOH720
|
4.5
|
24.5
|
1.0
|
CA
|
B:ALA305
|
4.5
|
23.9
|
1.0
|
CG
|
B:GLU70
|
4.5
|
23.9
|
1.0
|
N
|
A:THR54
|
4.6
|
21.6
|
1.0
|
ND2
|
A:ASN271
|
4.8
|
23.4
|
1.0
|
O
|
A:SER52
|
4.8
|
26.4
|
1.0
|
CE
|
A:LYS265
|
4.8
|
17.2
|
1.0
|
CG
|
A:ASN271
|
4.9
|
25.1
|
1.0
|
CB
|
B:ALA305
|
4.9
|
22.6
|
1.0
|
|
Potassium binding site 2 out
of 4 in 8v4a
Go back to
Potassium Binding Sites List in 8v4a
Potassium binding site 2 out
of 4 in the Proteus Vulgaris Tryptophan Indole-Lyase Complexed with L-Ethionine
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 2 of Proteus Vulgaris Tryptophan Indole-Lyase Complexed with L-Ethionine within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K503
b:27.4
occ:1.00
|
OE1
|
A:GLU70
|
2.7
|
19.3
|
1.0
|
O
|
A:HOH755
|
2.8
|
23.9
|
1.0
|
O
|
A:HOH696
|
2.8
|
22.3
|
1.0
|
O
|
B:GLY53
|
2.9
|
21.5
|
1.0
|
O
|
B:ASN271
|
2.9
|
20.2
|
1.0
|
O
|
B:HOH774
|
3.1
|
21.1
|
1.0
|
O
|
A:GLU70
|
3.2
|
21.6
|
1.0
|
C
|
B:GLY53
|
3.6
|
20.9
|
1.0
|
CD
|
A:GLU70
|
3.8
|
25.5
|
1.0
|
CA
|
B:GLY53
|
3.9
|
21.0
|
1.0
|
C
|
B:ASN271
|
3.9
|
20.0
|
1.0
|
CB
|
A:GLU70
|
3.9
|
21.4
|
1.0
|
CB
|
B:ASN271
|
3.9
|
18.5
|
1.0
|
C
|
A:GLU70
|
4.0
|
25.0
|
1.0
|
CA
|
A:GLU70
|
4.0
|
24.1
|
1.0
|
CA
|
B:ASN271
|
4.1
|
18.7
|
1.0
|
O
|
A:HOH666
|
4.2
|
20.5
|
1.0
|
CA
|
A:ALA305
|
4.3
|
24.6
|
1.0
|
N
|
A:GLY306
|
4.4
|
21.8
|
1.0
|
CG
|
A:GLU70
|
4.4
|
27.1
|
1.0
|
N
|
B:THR54
|
4.7
|
18.6
|
1.0
|
O
|
A:LEU304
|
4.8
|
23.1
|
1.0
|
OE2
|
A:GLU70
|
4.9
|
25.0
|
1.0
|
CB
|
A:ALA305
|
4.9
|
18.7
|
1.0
|
C
|
A:ALA305
|
4.9
|
22.3
|
1.0
|
CG
|
B:ASN271
|
4.9
|
25.5
|
1.0
|
ND2
|
B:ASN271
|
4.9
|
19.8
|
1.0
|
CE
|
B:LYS265
|
5.0
|
23.5
|
1.0
|
|
Potassium binding site 3 out
of 4 in 8v4a
Go back to
Potassium Binding Sites List in 8v4a
Potassium binding site 3 out
of 4 in the Proteus Vulgaris Tryptophan Indole-Lyase Complexed with L-Ethionine
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 3 of Proteus Vulgaris Tryptophan Indole-Lyase Complexed with L-Ethionine within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:K501
b:28.5
occ:1.00
|
OE1
|
D:GLU70
|
2.6
|
31.3
|
1.0
|
O
|
D:HOH701
|
2.7
|
23.4
|
1.0
|
O
|
C:GLY53
|
2.8
|
18.5
|
1.0
|
O
|
C:HOH702
|
2.8
|
24.8
|
1.0
|
O
|
C:ASN271
|
3.1
|
19.4
|
1.0
|
O
|
D:GLU70
|
3.1
|
29.5
|
1.0
|
O
|
C:HOH659
|
3.2
|
20.3
|
1.0
|
C
|
C:GLY53
|
3.6
|
20.1
|
1.0
|
CD
|
D:GLU70
|
3.7
|
32.8
|
1.0
|
CB
|
D:GLU70
|
3.9
|
26.9
|
1.0
|
CA
|
C:GLY53
|
3.9
|
20.7
|
1.0
|
CB
|
C:ASN271
|
3.9
|
19.7
|
1.0
|
C
|
D:GLU70
|
3.9
|
26.3
|
1.0
|
C
|
C:ASN271
|
4.0
|
19.8
|
1.0
|
CA
|
D:GLU70
|
4.0
|
26.7
|
1.0
|
CA
|
C:ASN271
|
4.1
|
22.3
|
1.0
|
CG
|
D:GLU70
|
4.3
|
28.0
|
1.0
|
O
|
D:HOH676
|
4.4
|
25.8
|
1.0
|
CA
|
D:ALA305
|
4.5
|
21.3
|
1.0
|
N
|
D:GLY306
|
4.5
|
25.7
|
1.0
|
N
|
C:THR54
|
4.7
|
22.3
|
1.0
|
ND2
|
C:ASN271
|
4.8
|
21.9
|
1.0
|
OE2
|
D:GLU70
|
4.8
|
23.6
|
1.0
|
CE
|
C:LYS265
|
4.8
|
20.0
|
1.0
|
CG
|
C:ASN271
|
4.8
|
23.9
|
1.0
|
O
|
D:LEU304
|
4.9
|
26.0
|
1.0
|
O
|
D:ALA71
|
4.9
|
23.9
|
1.0
|
|
Potassium binding site 4 out
of 4 in 8v4a
Go back to
Potassium Binding Sites List in 8v4a
Potassium binding site 4 out
of 4 in the Proteus Vulgaris Tryptophan Indole-Lyase Complexed with L-Ethionine
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 4 of Proteus Vulgaris Tryptophan Indole-Lyase Complexed with L-Ethionine within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:K503
b:25.1
occ:1.00
|
O
|
D:HOH762
|
2.7
|
20.9
|
1.0
|
OE1
|
C:GLU70
|
2.8
|
17.1
|
1.0
|
O
|
C:HOH723
|
2.8
|
16.4
|
1.0
|
O
|
D:GLY53
|
2.8
|
18.3
|
1.0
|
O
|
D:HOH743
|
2.9
|
25.7
|
1.0
|
O
|
D:ASN271
|
3.0
|
22.9
|
1.0
|
O
|
C:GLU70
|
3.1
|
24.2
|
1.0
|
C
|
D:GLY53
|
3.6
|
20.6
|
1.0
|
CB
|
C:GLU70
|
3.9
|
20.4
|
1.0
|
C
|
C:GLU70
|
3.9
|
23.6
|
1.0
|
CD
|
C:GLU70
|
3.9
|
25.4
|
1.0
|
CA
|
D:GLY53
|
3.9
|
20.0
|
1.0
|
C
|
D:ASN271
|
4.0
|
18.9
|
1.0
|
CA
|
C:GLU70
|
4.0
|
23.7
|
1.0
|
CB
|
D:ASN271
|
4.1
|
20.1
|
1.0
|
CA
|
D:ASN271
|
4.2
|
16.6
|
1.0
|
O
|
C:HOH794
|
4.3
|
25.8
|
1.0
|
N
|
C:GLY306
|
4.4
|
19.1
|
1.0
|
CA
|
C:ALA305
|
4.4
|
19.3
|
1.0
|
CG
|
C:GLU70
|
4.5
|
19.6
|
1.0
|
N
|
D:THR54
|
4.7
|
21.1
|
1.0
|
CE
|
D:LYS265
|
4.9
|
18.6
|
1.0
|
ND2
|
D:ASN271
|
4.9
|
23.8
|
1.0
|
O
|
D:SER52
|
4.9
|
25.3
|
1.0
|
CB
|
C:ALA305
|
4.9
|
20.9
|
1.0
|
O
|
C:LEU304
|
5.0
|
19.0
|
1.0
|
OE2
|
C:GLU70
|
5.0
|
23.6
|
1.0
|
C
|
C:ALA305
|
5.0
|
19.9
|
1.0
|
|
Reference:
R.S.Phillips,
R.S.Phillips.
N/A N/A.
Page generated: Tue Aug 13 01:11:16 2024
|