Potassium in PDB 8p02: Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Product, Benzoyl-Coa
Other elements in 8p02:
The structure of Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Product, 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 Product, Benzoyl-Coa
(pdb code 8p02). 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 Product, Benzoyl-Coa, PDB code: 8p02:
Jump to Potassium binding site number:
1;
2;
3;
4;
5;
6;
Potassium binding site 1 out
of 6 in 8p02
Go back to
Potassium Binding Sites List in 8p02
Potassium binding site 1 out
of 6 in the Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Product, 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 Product, Benzoyl-Coa within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K606
b:89.8
occ:1.00
|
O
|
A:ALA222
|
2.8
|
87.3
|
1.0
|
O
|
A:ILE167
|
2.8
|
86.6
|
1.0
|
OE2
|
A:GLU235
|
2.9
|
91.3
|
1.0
|
O
|
A:VAL219
|
2.9
|
86.2
|
1.0
|
O9
|
A:BYN602
|
2.9
|
91.5
|
1.0
|
O
|
A:ALA220
|
3.4
|
86.2
|
1.0
|
C
|
A:ALA222
|
3.5
|
87.3
|
1.0
|
CB
|
A:ALA222
|
3.5
|
87.3
|
1.0
|
O5
|
A:BYN602
|
3.6
|
91.5
|
1.0
|
N
|
A:ALA222
|
3.6
|
87.3
|
1.0
|
C
|
A:ALA220
|
3.6
|
86.2
|
1.0
|
P1
|
A:BYN602
|
3.7
|
91.5
|
1.0
|
O7
|
A:BYN602
|
3.7
|
91.5
|
1.0
|
CA
|
A:ALA222
|
3.7
|
87.3
|
1.0
|
CA
|
A:ALA220
|
3.7
|
86.2
|
1.0
|
C
|
A:VAL219
|
3.9
|
86.2
|
1.0
|
FE
|
A:FE603
|
4.0
|
100.2
|
1.0
|
C
|
A:ILE167
|
4.0
|
86.6
|
1.0
|
CD
|
A:GLU235
|
4.0
|
91.3
|
1.0
|
O10
|
A:BYN602
|
4.1
|
91.5
|
1.0
|
N
|
A:ALA220
|
4.3
|
86.2
|
1.0
|
CA
|
A:GLY168
|
4.3
|
87.5
|
1.0
|
C
|
A:GLY221
|
4.4
|
88.1
|
1.0
|
N
|
A:GLY221
|
4.5
|
88.1
|
1.0
|
N
|
A:GLY223
|
4.5
|
85.0
|
1.0
|
N
|
A:GLY168
|
4.7
|
87.5
|
1.0
|
OE1
|
A:GLU235
|
4.8
|
91.3
|
1.0
|
ND1
|
A:HIS166
|
4.9
|
86.8
|
1.0
|
CG
|
A:GLU235
|
4.9
|
91.3
|
1.0
|
CE1
|
A:HIS166
|
4.9
|
86.8
|
1.0
|
C20
|
A:BYN602
|
4.9
|
91.5
|
1.0
|
C22
|
A:BYN602
|
5.0
|
91.5
|
1.0
|
O8
|
A:BYN602
|
5.0
|
91.5
|
1.0
|
CB
|
A:ALA220
|
5.0
|
86.2
|
1.0
|
CA
|
A:GLY221
|
5.0
|
88.1
|
1.0
|
|
Potassium binding site 2 out
of 6 in 8p02
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Potassium Binding Sites List in 8p02
Potassium binding site 2 out
of 6 in the Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Product, 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 Product, Benzoyl-Coa within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:K606
b:90.6
occ:1.00
|
O
|
B:ALA222
|
2.8
|
87.7
|
1.0
|
O
|
B:ILE167
|
2.8
|
88.2
|
1.0
|
OE2
|
B:GLU235
|
2.9
|
92.7
|
1.0
|
O
|
B:VAL219
|
2.9
|
86.9
|
1.0
|
O9
|
B:BYN602
|
2.9
|
92.5
|
1.0
|
O
|
B:ALA220
|
3.4
|
87.1
|
1.0
|
C
|
B:ALA222
|
3.5
|
87.7
|
1.0
|
CB
|
B:ALA222
|
3.5
|
87.7
|
1.0
|
O5
|
B:BYN602
|
3.6
|
92.5
|
1.0
|
N
|
B:ALA222
|
3.6
|
87.7
|
1.0
|
C
|
B:ALA220
|
3.6
|
87.1
|
1.0
|
P1
|
B:BYN602
|
3.7
|
92.5
|
1.0
|
O7
|
B:BYN602
|
3.7
|
92.5
|
1.0
|
CA
|
B:ALA222
|
3.7
|
87.7
|
1.0
|
CA
|
B:ALA220
|
3.7
|
87.1
|
1.0
|
C
|
B:VAL219
|
3.9
|
86.9
|
1.0
|
FE
|
B:FE603
|
4.0
|
101.0
|
1.0
|
C
|
B:ILE167
|
4.0
|
88.2
|
1.0
|
CD
|
B:GLU235
|
4.0
|
92.7
|
1.0
|
O10
|
B:BYN602
|
4.1
|
92.5
|
1.0
|
N
|
B:ALA220
|
4.3
|
87.1
|
1.0
|
CA
|
B:GLY168
|
4.3
|
89.7
|
1.0
|
C
|
B:GLY221
|
4.4
|
88.5
|
1.0
|
N
|
B:GLY221
|
4.5
|
88.5
|
1.0
|
N
|
B:GLY223
|
4.5
|
85.1
|
1.0
|
N
|
B:GLY168
|
4.7
|
89.7
|
1.0
|
OE1
|
B:GLU235
|
4.8
|
92.7
|
1.0
|
ND1
|
B:HIS166
|
4.9
|
88.1
|
1.0
|
CG
|
B:GLU235
|
4.9
|
92.7
|
1.0
|
CE1
|
B:HIS166
|
4.9
|
88.1
|
1.0
|
C20
|
B:BYN602
|
4.9
|
92.5
|
1.0
|
C22
|
B:BYN602
|
5.0
|
92.5
|
1.0
|
O8
|
B:BYN602
|
5.0
|
92.5
|
1.0
|
CB
|
B:ALA220
|
5.0
|
87.1
|
1.0
|
CA
|
B:GLY221
|
5.0
|
88.5
|
1.0
|
|
Potassium binding site 3 out
of 6 in 8p02
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Potassium Binding Sites List in 8p02
Potassium binding site 3 out
of 6 in the Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Product, 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 Product, Benzoyl-Coa within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:K606
b:90.9
occ:1.00
|
O
|
C:ALA222
|
2.8
|
87.6
|
1.0
|
O
|
C:ILE167
|
2.8
|
88.4
|
1.0
|
OE2
|
C:GLU235
|
2.9
|
92.9
|
1.0
|
O
|
C:VAL219
|
2.9
|
87.1
|
1.0
|
O9
|
C:BYN602
|
2.9
|
92.5
|
1.0
|
O
|
C:ALA220
|
3.4
|
87.2
|
1.0
|
C
|
C:ALA222
|
3.5
|
87.6
|
1.0
|
CB
|
C:ALA222
|
3.5
|
87.6
|
1.0
|
O5
|
C:BYN602
|
3.6
|
92.5
|
1.0
|
N
|
C:ALA222
|
3.6
|
87.6
|
1.0
|
C
|
C:ALA220
|
3.6
|
87.2
|
1.0
|
P1
|
C:BYN602
|
3.7
|
92.5
|
1.0
|
O7
|
C:BYN602
|
3.7
|
92.5
|
1.0
|
CA
|
C:ALA222
|
3.7
|
87.6
|
1.0
|
CA
|
C:ALA220
|
3.7
|
87.2
|
1.0
|
C
|
C:VAL219
|
3.9
|
87.1
|
1.0
|
FE
|
C:FE603
|
4.0
|
101.1
|
1.0
|
C
|
C:ILE167
|
4.0
|
88.4
|
1.0
|
CD
|
C:GLU235
|
4.0
|
92.9
|
1.0
|
O10
|
C:BYN602
|
4.1
|
92.5
|
1.0
|
N
|
C:ALA220
|
4.3
|
87.2
|
1.0
|
CA
|
C:GLY168
|
4.3
|
89.6
|
1.0
|
C
|
C:GLY221
|
4.4
|
88.6
|
1.0
|
N
|
C:GLY221
|
4.5
|
88.6
|
1.0
|
N
|
C:GLY223
|
4.5
|
85.1
|
1.0
|
N
|
C:GLY168
|
4.7
|
89.6
|
1.0
|
OE1
|
C:GLU235
|
4.8
|
92.9
|
1.0
|
ND1
|
C:HIS166
|
4.9
|
88.3
|
1.0
|
CG
|
C:GLU235
|
4.9
|
92.9
|
1.0
|
CE1
|
C:HIS166
|
4.9
|
88.3
|
1.0
|
C20
|
C:BYN602
|
4.9
|
92.5
|
1.0
|
C22
|
C:BYN602
|
5.0
|
92.5
|
1.0
|
O8
|
C:BYN602
|
5.0
|
92.5
|
1.0
|
CB
|
C:ALA220
|
5.0
|
87.2
|
1.0
|
CA
|
C:GLY221
|
5.0
|
88.6
|
1.0
|
|
Potassium binding site 4 out
of 6 in 8p02
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Potassium Binding Sites List in 8p02
Potassium binding site 4 out
of 6 in the Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Product, 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 Product, Benzoyl-Coa within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:K606
b:90.0
occ:1.00
|
O
|
D:ALA222
|
2.8
|
87.1
|
1.0
|
O
|
D:ILE167
|
2.8
|
86.7
|
1.0
|
OE2
|
D:GLU235
|
2.9
|
91.3
|
1.0
|
O
|
D:VAL219
|
2.9
|
86.2
|
1.0
|
O9
|
D:BYN602
|
2.9
|
91.3
|
1.0
|
O
|
D:ALA220
|
3.4
|
86.0
|
1.0
|
C
|
D:ALA222
|
3.5
|
87.1
|
1.0
|
CB
|
D:ALA222
|
3.5
|
87.1
|
1.0
|
N
|
D:ALA222
|
3.6
|
87.1
|
1.0
|
O5
|
D:BYN602
|
3.6
|
91.3
|
1.0
|
C
|
D:ALA220
|
3.6
|
86.0
|
1.0
|
P1
|
D:BYN602
|
3.7
|
91.3
|
1.0
|
O7
|
D:BYN602
|
3.7
|
91.3
|
1.0
|
CA
|
D:ALA222
|
3.7
|
87.1
|
1.0
|
CA
|
D:ALA220
|
3.7
|
86.0
|
1.0
|
C
|
D:VAL219
|
3.9
|
86.2
|
1.0
|
FE
|
D:FE603
|
4.0
|
100.6
|
1.0
|
C
|
D:ILE167
|
4.0
|
86.7
|
1.0
|
CD
|
D:GLU235
|
4.0
|
91.3
|
1.0
|
O10
|
D:BYN602
|
4.1
|
91.3
|
1.0
|
N
|
D:ALA220
|
4.3
|
86.0
|
1.0
|
CA
|
D:GLY168
|
4.3
|
87.5
|
1.0
|
C
|
D:GLY221
|
4.4
|
88.0
|
1.0
|
N
|
D:GLY221
|
4.5
|
88.0
|
1.0
|
N
|
D:GLY223
|
4.5
|
84.8
|
1.0
|
N
|
D:GLY168
|
4.7
|
87.5
|
1.0
|
OE1
|
D:GLU235
|
4.8
|
91.3
|
1.0
|
ND1
|
D:HIS166
|
4.9
|
86.8
|
1.0
|
CG
|
D:GLU235
|
4.9
|
91.3
|
1.0
|
CE1
|
D:HIS166
|
4.9
|
86.8
|
1.0
|
C20
|
D:BYN602
|
4.9
|
91.3
|
1.0
|
C22
|
D:BYN602
|
5.0
|
91.3
|
1.0
|
CB
|
D:ALA220
|
5.0
|
86.0
|
1.0
|
O8
|
D:BYN602
|
5.0
|
91.3
|
1.0
|
CA
|
D:GLY221
|
5.0
|
88.0
|
1.0
|
|
Potassium binding site 5 out
of 6 in 8p02
Go back to
Potassium Binding Sites List in 8p02
Potassium binding site 5 out
of 6 in the Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Product, 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 Product, Benzoyl-Coa within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:K606
b:89.4
occ:1.00
|
O
|
E:ALA222
|
2.8
|
87.3
|
1.0
|
O
|
E:ILE167
|
2.8
|
87.6
|
1.0
|
OE2
|
E:GLU235
|
2.9
|
91.9
|
1.0
|
O
|
E:VAL219
|
2.9
|
86.5
|
1.0
|
O9
|
E:BYN602
|
2.9
|
91.7
|
1.0
|
O
|
E:ALA220
|
3.4
|
87.1
|
1.0
|
C
|
E:ALA222
|
3.5
|
87.3
|
1.0
|
CB
|
E:ALA222
|
3.5
|
87.3
|
1.0
|
O5
|
E:BYN602
|
3.6
|
91.7
|
1.0
|
N
|
E:ALA222
|
3.6
|
87.3
|
1.0
|
C
|
E:ALA220
|
3.6
|
87.1
|
1.0
|
P1
|
E:BYN602
|
3.7
|
91.7
|
1.0
|
O7
|
E:BYN602
|
3.7
|
91.7
|
1.0
|
CA
|
E:ALA222
|
3.7
|
87.3
|
1.0
|
CA
|
E:ALA220
|
3.7
|
87.1
|
1.0
|
C
|
E:VAL219
|
3.9
|
86.5
|
1.0
|
FE
|
E:FE603
|
4.0
|
101.6
|
1.0
|
C
|
E:ILE167
|
4.0
|
87.6
|
1.0
|
CD
|
E:GLU235
|
4.0
|
91.9
|
1.0
|
O10
|
E:BYN602
|
4.1
|
91.7
|
1.0
|
N
|
E:ALA220
|
4.3
|
87.1
|
1.0
|
CA
|
E:GLY168
|
4.3
|
89.0
|
1.0
|
C
|
E:GLY221
|
4.4
|
88.6
|
1.0
|
N
|
E:GLY221
|
4.5
|
88.6
|
1.0
|
N
|
E:GLY223
|
4.5
|
84.4
|
1.0
|
N
|
E:GLY168
|
4.7
|
89.0
|
1.0
|
OE1
|
E:GLU235
|
4.8
|
91.9
|
1.0
|
ND1
|
E:HIS166
|
4.9
|
88.5
|
1.0
|
CE1
|
E:HIS166
|
4.9
|
88.5
|
1.0
|
CG
|
E:GLU235
|
4.9
|
91.9
|
1.0
|
C20
|
E:BYN602
|
4.9
|
91.7
|
1.0
|
C22
|
E:BYN602
|
5.0
|
91.7
|
1.0
|
CB
|
E:ALA220
|
5.0
|
87.1
|
1.0
|
O8
|
E:BYN602
|
5.0
|
91.7
|
1.0
|
CA
|
E:GLY221
|
5.0
|
88.6
|
1.0
|
|
Potassium binding site 6 out
of 6 in 8p02
Go back to
Potassium Binding Sites List in 8p02
Potassium binding site 6 out
of 6 in the Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Product, 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 Product, Benzoyl-Coa within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:K606
b:89.8
occ:1.00
|
O
|
F:ALA222
|
2.8
|
87.5
|
1.0
|
O
|
F:ILE167
|
2.8
|
87.4
|
1.0
|
OE2
|
F:GLU235
|
2.9
|
91.5
|
1.0
|
O
|
F:VAL219
|
2.9
|
86.4
|
1.0
|
O9
|
F:BYN602
|
2.9
|
91.6
|
1.0
|
O
|
F:ALA220
|
3.4
|
86.9
|
1.0
|
C
|
F:ALA222
|
3.5
|
87.5
|
1.0
|
CB
|
F:ALA222
|
3.5
|
87.5
|
1.0
|
N
|
F:ALA222
|
3.6
|
87.5
|
1.0
|
O5
|
F:BYN602
|
3.6
|
91.6
|
1.0
|
C
|
F:ALA220
|
3.6
|
86.9
|
1.0
|
P1
|
F:BYN602
|
3.7
|
91.6
|
1.0
|
O7
|
F:BYN602
|
3.7
|
91.6
|
1.0
|
CA
|
F:ALA222
|
3.7
|
87.5
|
1.0
|
CA
|
F:ALA220
|
3.7
|
86.9
|
1.0
|
C
|
F:VAL219
|
3.9
|
86.4
|
1.0
|
FE
|
F:FE603
|
4.0
|
100.8
|
1.0
|
C
|
F:ILE167
|
4.0
|
87.4
|
1.0
|
CD
|
F:GLU235
|
4.0
|
91.5
|
1.0
|
O10
|
F:BYN602
|
4.1
|
91.6
|
1.0
|
N
|
F:ALA220
|
4.3
|
86.9
|
1.0
|
CA
|
F:GLY168
|
4.3
|
89.0
|
1.0
|
C
|
F:GLY221
|
4.4
|
88.6
|
1.0
|
N
|
F:GLY221
|
4.5
|
88.6
|
1.0
|
N
|
F:GLY223
|
4.5
|
84.7
|
1.0
|
N
|
F:GLY168
|
4.7
|
89.0
|
1.0
|
OE1
|
F:GLU235
|
4.8
|
91.5
|
1.0
|
ND1
|
F:HIS166
|
4.9
|
88.3
|
1.0
|
CG
|
F:GLU235
|
4.9
|
91.5
|
1.0
|
CE1
|
F:HIS166
|
4.9
|
88.3
|
1.0
|
C20
|
F:BYN602
|
4.9
|
91.6
|
1.0
|
C22
|
F:BYN602
|
5.0
|
91.6
|
1.0
|
CB
|
F:ALA220
|
5.0
|
86.9
|
1.0
|
O8
|
F:BYN602
|
5.0
|
91.6
|
1.0
|
CA
|
F:GLY221
|
5.0
|
88.6
|
1.0
|
|
Reference:
K.Kayastha,
U.Ermler.
Cryo-Em Structure of Phthaloyl-Coa Decarboxylase (Pcd) Bound with Product, Benzoyl-Coa To Be Published.
Page generated: Tue Aug 13 00:21:40 2024
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