Potassium in PDB 8oz5: Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Substrate Analog/Inhibitor, 2-Cn-Benzoyl-Coa
Other elements in 8oz5:
The structure of Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Substrate Analog/Inhibitor, 2-Cn-Benzoyl-Coa also contains other interesting chemical elements:
Potassium Binding Sites:
The binding sites of Potassium atom in the Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Substrate Analog/Inhibitor, 2-Cn-Benzoyl-Coa
(pdb code 8oz5). This binding sites where shown within
5.0 Angstroms radius around Potassium atom.
In total 6 binding sites of Potassium where determined in the
Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Substrate Analog/Inhibitor, 2-Cn-Benzoyl-Coa, PDB code: 8oz5:
Jump to Potassium binding site number:
1;
2;
3;
4;
5;
6;
Potassium binding site 1 out
of 6 in 8oz5
Go back to
Potassium Binding Sites List in 8oz5
Potassium binding site 1 out
of 6 in the Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Substrate Analog/Inhibitor, 2-Cn-Benzoyl-Coa
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 1 of Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Substrate Analog/Inhibitor, 2-Cn-Benzoyl-Coa within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K605
b:64.2
occ:1.00
|
O
|
A:ALA222
|
2.8
|
65.8
|
1.0
|
O
|
A:ILE167
|
2.8
|
64.5
|
1.0
|
OE2
|
A:GLU235
|
2.8
|
66.7
|
1.0
|
O9
|
A:BYN601
|
2.8
|
70.5
|
1.0
|
O
|
A:VAL219
|
3.0
|
64.7
|
1.0
|
O
|
A:ALA220
|
3.1
|
65.1
|
1.0
|
H28
|
A:BYN601
|
3.2
|
70.5
|
1.0
|
C
|
A:ALA220
|
3.5
|
65.1
|
1.0
|
O5
|
A:BYN601
|
3.5
|
70.5
|
1.0
|
C
|
A:ALA222
|
3.5
|
65.8
|
1.0
|
CA
|
A:ALA220
|
3.5
|
65.1
|
1.0
|
P1
|
A:BYN601
|
3.6
|
70.5
|
1.0
|
O7
|
A:BYN601
|
3.7
|
70.5
|
1.0
|
N
|
A:ALA222
|
3.7
|
65.8
|
1.0
|
CD
|
A:GLU235
|
3.8
|
66.7
|
1.0
|
CB
|
A:ALA222
|
3.8
|
65.8
|
1.0
|
CA
|
A:ALA222
|
3.9
|
65.8
|
1.0
|
O
|
A:HOH718
|
3.9
|
66.6
|
1.0
|
C
|
A:ILE167
|
4.0
|
64.5
|
1.0
|
C
|
A:VAL219
|
4.0
|
64.7
|
1.0
|
FE
|
A:FE603
|
4.0
|
75.3
|
1.0
|
OE1
|
A:GLU235
|
4.1
|
66.7
|
1.0
|
O10
|
A:BYN601
|
4.1
|
70.5
|
1.0
|
N
|
A:ALA220
|
4.3
|
65.1
|
1.0
|
CA
|
A:GLY168
|
4.3
|
66.4
|
1.0
|
N
|
A:GLY221
|
4.5
|
66.9
|
1.0
|
C
|
A:GLY221
|
4.5
|
66.9
|
1.0
|
N
|
A:GLY223
|
4.6
|
63.8
|
1.0
|
H27
|
A:BYN601
|
4.6
|
70.5
|
1.0
|
N
|
A:GLY168
|
4.6
|
66.4
|
1.0
|
CB
|
A:ALA220
|
4.7
|
65.1
|
1.0
|
C20
|
A:BYN601
|
4.8
|
70.5
|
1.0
|
ND1
|
A:HIS166
|
4.9
|
65.2
|
1.0
|
CE1
|
A:HIS166
|
4.9
|
65.2
|
1.0
|
O8
|
A:BYN601
|
4.9
|
70.5
|
1.0
|
|
Potassium binding site 2 out
of 6 in 8oz5
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Potassium Binding Sites List in 8oz5
Potassium binding site 2 out
of 6 in the Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Substrate Analog/Inhibitor, 2-Cn-Benzoyl-Coa
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 2 of Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Substrate Analog/Inhibitor, 2-Cn-Benzoyl-Coa within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:K605
b:64.1
occ:1.00
|
O
|
B:ALA222
|
2.8
|
65.8
|
1.0
|
O
|
B:ILE167
|
2.8
|
65.0
|
1.0
|
OE2
|
B:GLU235
|
2.8
|
66.6
|
1.0
|
O9
|
B:BYN601
|
2.8
|
70.2
|
1.0
|
O
|
B:VAL219
|
3.0
|
64.8
|
1.0
|
O
|
B:ALA220
|
3.1
|
65.4
|
1.0
|
H28
|
B:BYN601
|
3.2
|
70.2
|
1.0
|
C
|
B:ALA220
|
3.5
|
65.4
|
1.0
|
O5
|
B:BYN601
|
3.5
|
70.2
|
1.0
|
C
|
B:ALA222
|
3.5
|
65.8
|
1.0
|
CA
|
B:ALA220
|
3.5
|
65.4
|
1.0
|
P1
|
B:BYN601
|
3.6
|
70.2
|
1.0
|
O7
|
B:BYN601
|
3.7
|
70.2
|
1.0
|
N
|
B:ALA222
|
3.7
|
65.8
|
1.0
|
CD
|
B:GLU235
|
3.8
|
66.6
|
1.0
|
CB
|
B:ALA222
|
3.8
|
65.8
|
1.0
|
CA
|
B:ALA222
|
3.9
|
65.8
|
1.0
|
C
|
B:ILE167
|
4.0
|
65.0
|
1.0
|
C
|
B:VAL219
|
4.0
|
64.8
|
1.0
|
FE
|
B:FE603
|
4.0
|
75.5
|
1.0
|
OE1
|
B:GLU235
|
4.1
|
66.6
|
1.0
|
O10
|
B:BYN601
|
4.1
|
70.2
|
1.0
|
N
|
B:ALA220
|
4.3
|
65.4
|
1.0
|
CA
|
B:GLY168
|
4.3
|
66.1
|
1.0
|
N
|
B:GLY221
|
4.5
|
66.8
|
1.0
|
C
|
B:GLY221
|
4.5
|
66.8
|
1.0
|
N
|
B:GLY223
|
4.6
|
62.6
|
1.0
|
H27
|
B:BYN601
|
4.6
|
70.2
|
1.0
|
N
|
B:GLY168
|
4.6
|
66.1
|
1.0
|
CB
|
B:ALA220
|
4.7
|
65.4
|
1.0
|
C20
|
B:BYN601
|
4.8
|
70.2
|
1.0
|
ND1
|
B:HIS166
|
4.9
|
64.6
|
1.0
|
CE1
|
B:HIS166
|
4.9
|
64.6
|
1.0
|
O8
|
B:BYN601
|
4.9
|
70.2
|
1.0
|
|
Potassium binding site 3 out
of 6 in 8oz5
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Potassium Binding Sites List in 8oz5
Potassium binding site 3 out
of 6 in the Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Substrate Analog/Inhibitor, 2-Cn-Benzoyl-Coa
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 3 of Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Substrate Analog/Inhibitor, 2-Cn-Benzoyl-Coa within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:K605
b:64.6
occ:1.00
|
O
|
C:ALA222
|
2.8
|
66.1
|
1.0
|
O
|
C:ILE167
|
2.8
|
65.0
|
1.0
|
OE2
|
C:GLU235
|
2.8
|
66.6
|
1.0
|
O9
|
C:BYN601
|
2.8
|
70.4
|
1.0
|
O
|
C:VAL219
|
3.0
|
65.1
|
1.0
|
O
|
C:ALA220
|
3.1
|
65.7
|
1.0
|
H28
|
C:BYN601
|
3.2
|
70.4
|
1.0
|
C
|
C:ALA220
|
3.5
|
65.7
|
1.0
|
O5
|
C:BYN601
|
3.5
|
70.4
|
1.0
|
C
|
C:ALA222
|
3.5
|
66.1
|
1.0
|
CA
|
C:ALA220
|
3.5
|
65.7
|
1.0
|
P1
|
C:BYN601
|
3.6
|
70.4
|
1.0
|
O7
|
C:BYN601
|
3.7
|
70.4
|
1.0
|
N
|
C:ALA222
|
3.7
|
66.1
|
1.0
|
CD
|
C:GLU235
|
3.8
|
66.6
|
1.0
|
CB
|
C:ALA222
|
3.8
|
66.1
|
1.0
|
CA
|
C:ALA222
|
3.9
|
66.1
|
1.0
|
C
|
C:ILE167
|
4.0
|
65.0
|
1.0
|
C
|
C:VAL219
|
4.0
|
65.1
|
1.0
|
FE
|
C:FE603
|
4.0
|
75.1
|
1.0
|
OE1
|
C:GLU235
|
4.1
|
66.6
|
1.0
|
O10
|
C:BYN601
|
4.1
|
70.4
|
1.0
|
N
|
C:ALA220
|
4.3
|
65.7
|
1.0
|
CA
|
C:GLY168
|
4.3
|
66.3
|
1.0
|
N
|
C:GLY221
|
4.5
|
67.1
|
1.0
|
C
|
C:GLY221
|
4.5
|
67.1
|
1.0
|
N
|
C:GLY223
|
4.6
|
63.1
|
1.0
|
N
|
C:GLY168
|
4.6
|
66.3
|
1.0
|
H27
|
C:BYN601
|
4.7
|
70.4
|
1.0
|
CB
|
C:ALA220
|
4.7
|
65.7
|
1.0
|
C20
|
C:BYN601
|
4.8
|
70.4
|
1.0
|
ND1
|
C:HIS166
|
4.9
|
64.7
|
1.0
|
CE1
|
C:HIS166
|
4.9
|
64.7
|
1.0
|
O8
|
C:BYN601
|
4.9
|
70.4
|
1.0
|
|
Potassium binding site 4 out
of 6 in 8oz5
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Potassium Binding Sites List in 8oz5
Potassium binding site 4 out
of 6 in the Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Substrate Analog/Inhibitor, 2-Cn-Benzoyl-Coa
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 4 of Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Substrate Analog/Inhibitor, 2-Cn-Benzoyl-Coa within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:K605
b:64.3
occ:1.00
|
O
|
D:ALA222
|
2.8
|
66.0
|
1.0
|
O
|
D:ILE167
|
2.8
|
64.2
|
1.0
|
OE2
|
D:GLU235
|
2.8
|
66.3
|
1.0
|
O9
|
D:BYN601
|
2.8
|
70.4
|
1.0
|
O
|
D:VAL219
|
3.0
|
64.6
|
1.0
|
H28
|
D:BYN601
|
3.1
|
70.4
|
1.0
|
O
|
D:ALA220
|
3.1
|
65.0
|
1.0
|
C
|
D:ALA220
|
3.5
|
65.0
|
1.0
|
O5
|
D:BYN601
|
3.5
|
70.4
|
1.0
|
C
|
D:ALA222
|
3.5
|
66.0
|
1.0
|
CA
|
D:ALA220
|
3.5
|
65.0
|
1.0
|
P1
|
D:BYN601
|
3.6
|
70.4
|
1.0
|
O7
|
D:BYN601
|
3.7
|
70.4
|
1.0
|
N
|
D:ALA222
|
3.7
|
66.0
|
1.0
|
CD
|
D:GLU235
|
3.8
|
66.3
|
1.0
|
CB
|
D:ALA222
|
3.8
|
66.0
|
1.0
|
CA
|
D:ALA222
|
3.9
|
66.0
|
1.0
|
C
|
D:ILE167
|
4.0
|
64.2
|
1.0
|
C
|
D:VAL219
|
4.0
|
64.6
|
1.0
|
FE
|
D:FE603
|
4.0
|
75.2
|
1.0
|
OE1
|
D:GLU235
|
4.1
|
66.3
|
1.0
|
O10
|
D:BYN601
|
4.1
|
70.4
|
1.0
|
N
|
D:ALA220
|
4.3
|
65.0
|
1.0
|
CA
|
D:GLY168
|
4.3
|
66.0
|
1.0
|
N
|
D:GLY221
|
4.5
|
67.0
|
1.0
|
C
|
D:GLY221
|
4.5
|
67.0
|
1.0
|
H27
|
D:BYN601
|
4.5
|
70.4
|
1.0
|
N
|
D:GLY223
|
4.6
|
63.9
|
1.0
|
N
|
D:GLY168
|
4.6
|
66.0
|
1.0
|
CB
|
D:ALA220
|
4.7
|
65.0
|
1.0
|
C20
|
D:BYN601
|
4.8
|
70.4
|
1.0
|
ND1
|
D:HIS166
|
4.9
|
64.9
|
1.0
|
CE1
|
D:HIS166
|
4.9
|
64.9
|
1.0
|
O8
|
D:BYN601
|
4.9
|
70.4
|
1.0
|
|
Potassium binding site 5 out
of 6 in 8oz5
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Potassium Binding Sites List in 8oz5
Potassium binding site 5 out
of 6 in the Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Substrate Analog/Inhibitor, 2-Cn-Benzoyl-Coa
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 5 of Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Substrate Analog/Inhibitor, 2-Cn-Benzoyl-Coa within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:K605
b:63.0
occ:1.00
|
O
|
E:ALA222
|
2.8
|
66.3
|
1.0
|
O
|
E:ILE167
|
2.8
|
63.8
|
1.0
|
OE2
|
E:GLU235
|
2.8
|
66.4
|
1.0
|
O9
|
E:BYN601
|
2.8
|
69.8
|
1.0
|
O
|
E:VAL219
|
3.0
|
63.9
|
1.0
|
H28
|
E:BYN601
|
3.1
|
69.8
|
1.0
|
O
|
E:ALA220
|
3.1
|
65.1
|
1.0
|
C
|
E:ALA220
|
3.5
|
65.1
|
1.0
|
O5
|
E:BYN601
|
3.5
|
69.8
|
1.0
|
C
|
E:ALA222
|
3.5
|
66.3
|
1.0
|
CA
|
E:ALA220
|
3.5
|
65.1
|
1.0
|
P1
|
E:BYN601
|
3.6
|
69.8
|
1.0
|
O7
|
E:BYN601
|
3.7
|
69.8
|
1.0
|
N
|
E:ALA222
|
3.7
|
66.3
|
1.0
|
CD
|
E:GLU235
|
3.8
|
66.4
|
1.0
|
CB
|
E:ALA222
|
3.8
|
66.3
|
1.0
|
CA
|
E:ALA222
|
3.9
|
66.3
|
1.0
|
C
|
E:ILE167
|
4.0
|
63.8
|
1.0
|
C
|
E:VAL219
|
4.0
|
63.9
|
1.0
|
FE
|
E:FE603
|
4.0
|
75.5
|
1.0
|
OE1
|
E:GLU235
|
4.1
|
66.4
|
1.0
|
O10
|
E:BYN601
|
4.1
|
69.8
|
1.0
|
N
|
E:ALA220
|
4.3
|
65.1
|
1.0
|
CA
|
E:GLY168
|
4.3
|
65.5
|
1.0
|
N
|
E:GLY221
|
4.5
|
66.7
|
1.0
|
C
|
E:GLY221
|
4.5
|
66.7
|
1.0
|
H27
|
E:BYN601
|
4.5
|
69.8
|
1.0
|
N
|
E:GLY223
|
4.6
|
63.6
|
1.0
|
N
|
E:GLY168
|
4.6
|
65.5
|
1.0
|
CB
|
E:ALA220
|
4.7
|
65.1
|
1.0
|
C20
|
E:BYN601
|
4.8
|
69.8
|
1.0
|
ND1
|
E:HIS166
|
4.9
|
64.3
|
1.0
|
CE1
|
E:HIS166
|
4.9
|
64.3
|
1.0
|
O8
|
E:BYN601
|
4.9
|
69.8
|
1.0
|
|
Potassium binding site 6 out
of 6 in 8oz5
Go back to
Potassium Binding Sites List in 8oz5
Potassium binding site 6 out
of 6 in the Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Substrate Analog/Inhibitor, 2-Cn-Benzoyl-Coa
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 6 of Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Substrate Analog/Inhibitor, 2-Cn-Benzoyl-Coa within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:K605
b:62.6
occ:1.00
|
O
|
F:ALA222
|
2.8
|
65.9
|
1.0
|
O
|
F:ILE167
|
2.8
|
63.9
|
1.0
|
OE2
|
F:GLU235
|
2.8
|
66.1
|
1.0
|
O9
|
F:BYN601
|
2.8
|
69.8
|
1.0
|
O
|
F:VAL219
|
3.0
|
64.0
|
1.0
|
H28
|
F:BYN601
|
3.1
|
69.8
|
1.0
|
O
|
F:ALA220
|
3.1
|
65.2
|
1.0
|
C
|
F:ALA220
|
3.5
|
65.2
|
1.0
|
O5
|
F:BYN601
|
3.5
|
69.8
|
1.0
|
C
|
F:ALA222
|
3.5
|
65.9
|
1.0
|
CA
|
F:ALA220
|
3.5
|
65.2
|
1.0
|
P1
|
F:BYN601
|
3.6
|
69.8
|
1.0
|
O7
|
F:BYN601
|
3.7
|
69.8
|
1.0
|
N
|
F:ALA222
|
3.7
|
65.9
|
1.0
|
CD
|
F:GLU235
|
3.8
|
66.1
|
1.0
|
CB
|
F:ALA222
|
3.8
|
65.9
|
1.0
|
CA
|
F:ALA222
|
3.9
|
65.9
|
1.0
|
C
|
F:ILE167
|
4.0
|
63.9
|
1.0
|
C
|
F:VAL219
|
4.0
|
64.0
|
1.0
|
FE
|
F:FE603
|
4.0
|
75.4
|
1.0
|
OE1
|
F:GLU235
|
4.1
|
66.1
|
1.0
|
O10
|
F:BYN601
|
4.1
|
69.8
|
1.0
|
N
|
F:ALA220
|
4.3
|
65.2
|
1.0
|
CA
|
F:GLY168
|
4.3
|
65.6
|
1.0
|
N
|
F:GLY221
|
4.5
|
66.4
|
1.0
|
C
|
F:GLY221
|
4.5
|
66.4
|
1.0
|
H27
|
F:BYN601
|
4.6
|
69.8
|
1.0
|
N
|
F:GLY223
|
4.6
|
63.5
|
1.0
|
N
|
F:GLY168
|
4.6
|
65.6
|
1.0
|
CB
|
F:ALA220
|
4.7
|
65.2
|
1.0
|
C20
|
F:BYN601
|
4.8
|
69.8
|
1.0
|
ND1
|
F:HIS166
|
4.9
|
64.3
|
1.0
|
CE1
|
F:HIS166
|
4.9
|
64.3
|
1.0
|
O8
|
F:BYN601
|
4.9
|
69.8
|
1.0
|
|
Reference:
K.Kayastha,
U.Ermler.
Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Substrate Analog/Inhibitor, 2-Cn-Benzoyl-Coa To Be Published.
Page generated: Tue Aug 13 00:20:26 2024
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