Atomistry » Potassium » PDB 6pcd-6qm2 » 6pcd
Atomistry »
  Potassium »
    PDB 6pcd-6qm2 »
      6pcd »

Potassium in PDB 6pcd: Crystal Structure of Beta-Ketoadipyl-Coa Thiolase Mutant (C90S-H356A) in Complex Octanoyl Coenzyme A

Enzymatic activity of Crystal Structure of Beta-Ketoadipyl-Coa Thiolase Mutant (C90S-H356A) in Complex Octanoyl Coenzyme A

All present enzymatic activity of Crystal Structure of Beta-Ketoadipyl-Coa Thiolase Mutant (C90S-H356A) in Complex Octanoyl Coenzyme A:
2.3.1.16; 2.3.1.174;

Protein crystallography data

The structure of Crystal Structure of Beta-Ketoadipyl-Coa Thiolase Mutant (C90S-H356A) in Complex Octanoyl Coenzyme A, PDB code: 6pcd was solved by B.Sukritee, S.Panjikar, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.99 / 1.37
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 111.078, 116.621, 128.561, 90.00, 90.00, 90.00
R / Rfree (%) 14 / 17.3

Other elements in 6pcd:

The structure of Crystal Structure of Beta-Ketoadipyl-Coa Thiolase Mutant (C90S-H356A) in Complex Octanoyl Coenzyme A also contains other interesting chemical elements:

Chlorine (Cl) 5 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of Beta-Ketoadipyl-Coa Thiolase Mutant (C90S-H356A) in Complex Octanoyl Coenzyme A (pdb code 6pcd). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 3 binding sites of Potassium where determined in the Crystal Structure of Beta-Ketoadipyl-Coa Thiolase Mutant (C90S-H356A) in Complex Octanoyl Coenzyme A, PDB code: 6pcd:
Jump to Potassium binding site number: 1; 2; 3;

Potassium binding site 1 out of 3 in 6pcd

Go back to Potassium Binding Sites List in 6pcd
Potassium binding site 1 out of 3 in the Crystal Structure of Beta-Ketoadipyl-Coa Thiolase Mutant (C90S-H356A) in Complex Octanoyl Coenzyme A


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of Beta-Ketoadipyl-Coa Thiolase Mutant (C90S-H356A) in Complex Octanoyl Coenzyme A within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K505

b:36.1
occ:0.45
 O B:ALA9 2.7 20.1 1.0
O B:HOH922 2.8 47.6 1.0
O B:GLU203 2.9 18.3 0.5
O B:GLU203 3.1 17.6 0.5
NH2 B:ARG40 3.5 17.9 1.0
CA B:GLU204 3.8 15.7 1.0
C B:GLU203 3.9 18.3 0.5
C B:ALA9 3.9 14.6 1.0
C B:GLU203 3.9 15.7 0.5
CD1 B:ILE10 4.0 23.8 1.0
O B:HOH631 4.2 28.9 1.0
N B:GLU204 4.3 16.0 1.0
CZ B:ARG40 4.4 16.8 1.0
C B:GLU204 4.4 15.2 1.0
O B:GLU204 4.4 16.4 1.0
O B:HOH758 4.5 18.1 1.0
OD1 B:ASP8 4.5 18.2 1.0
CA B:ILE10 4.6 15.9 1.0
N B:ILE10 4.7 14.7 1.0
O B:HOH628 4.8 38.1 1.0
CB B:GLU204 4.8 18.3 1.0
NH1 B:ARG40 4.8 18.4 1.0
N B:ALA9 4.9 14.6 1.0
CA B:ALA9 4.9 14.5 1.0
CG B:GLU204 4.9 17.0 1.0

Potassium binding site 2 out of 3 in 6pcd

Go back to Potassium Binding Sites List in 6pcd
Potassium binding site 2 out of 3 in the Crystal Structure of Beta-Ketoadipyl-Coa Thiolase Mutant (C90S-H356A) in Complex Octanoyl Coenzyme A


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of Beta-Ketoadipyl-Coa Thiolase Mutant (C90S-H356A) in Complex Octanoyl Coenzyme A within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K504

b:34.4
occ:0.75
 OD1 C:ASP95 2.5 17.5 0.5
O B:HOH706 2.6 21.5 1.0
O C:HOH784 2.9 17.7 1.0
OD1 C:ASP95 3.1 16.8 0.5
OD2 C:ASP95 3.1 17.5 0.5
CG C:ASP95 3.1 16.5 0.5
NH2 C:ARG88 3.6 17.8 1.0
OG1 C:THR99 3.6 15.4 1.0
CE2 B:PHE53 3.7 18.8 1.0
CG1 B:VAL84 3.8 16.2 1.0
NH1 C:ARG102 3.9 16.6 1.0
CE C:MET284 4.0 17.9 1.0
CG C:ASP95 4.1 16.1 0.5
CG2 B:VAL84 4.4 18.1 1.0
CD2 B:PHE53 4.5 17.6 1.0
CZ B:PHE53 4.5 19.4 1.0
CB B:VAL84 4.5 15.0 1.0
CB C:ASP95 4.6 14.0 0.5
OE2 B:GLU51 4.6 19.6 1.0
CB C:ASP95 4.6 16.3 0.5
CZ C:ARG88 4.8 16.5 1.0
O C:ASP95 4.8 13.1 0.5
CB C:THR99 5.0 14.6 1.0
OD2 C:ASP95 5.0 17.7 0.5

Potassium binding site 3 out of 3 in 6pcd

Go back to Potassium Binding Sites List in 6pcd
Potassium binding site 3 out of 3 in the Crystal Structure of Beta-Ketoadipyl-Coa Thiolase Mutant (C90S-H356A) in Complex Octanoyl Coenzyme A


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Crystal Structure of Beta-Ketoadipyl-Coa Thiolase Mutant (C90S-H356A) in Complex Octanoyl Coenzyme A within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K505

b:57.7
occ:0.85
 O C:ARG136 2.9 21.3 1.0
O D:HOH861 3.1 40.3 1.0
O C:MET138 3.2 23.8 1.0
O D:HOH742 3.7 40.0 1.0
N C:MET138 3.7 23.4 1.0
CE2 D:PHE125 3.8 19.2 1.0
CA C:ASN137 4.0 23.5 1.0
C C:ARG136 4.0 19.4 1.0
C C:MET138 4.2 19.8 1.0
C C:ASN137 4.2 27.2 1.0
O D:HOH656 4.3 34.0 1.0
CB D:ASP142 4.4 17.0 1.0
N C:ASN137 4.4 21.9 1.0
CD2 D:PHE125 4.5 17.3 1.0
CA C:MET138 4.5 20.2 1.0
N D:ASP142 4.7 17.8 1.0
CZ D:PHE125 4.7 20.4 1.0
O D:LEU140 5.0 20.0 1.0

Reference:

S.Bhaskar, D.Steer, R.Anand, S.Panjikar. Structural Basis For Differentiation Between Two Classes of Thiolase: Degradative Vs Biosynthetic Thiolase J Struct Biol X 2020.
ISSN: ESSN 2590-1524
DOI: 10.1016/J.YJSBX.2019.100018
Page generated: Mon Aug 12 17:07:34 2024

Last articles

Zn in 9J0N
Zn in 9J0O
Zn in 9J0P
Zn in 9FJX
Zn in 9EKB
Zn in 9C0F
Zn in 9CAH
Zn in 9CH0
Zn in 9CH3
Zn in 9CH1
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy