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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:

Calcium (Ca) 6 atoms
Iron (Fe) 12 atoms

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

Go back to 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

Go back to 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

Go back to 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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