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Potassium in PDB 8h5l: Crystal Structure of Petase N37D/S121E/R132E/A171C/A180V/P181V/D186H/S193C/A202C/V211C/S214Y/R224 E/N233C/S242T/N246D/N275C/S282C/F284C Mutant From Ideonella Sakaiensis

Enzymatic activity of Crystal Structure of Petase N37D/S121E/R132E/A171C/A180V/P181V/D186H/S193C/A202C/V211C/S214Y/R224 E/N233C/S242T/N246D/N275C/S282C/F284C Mutant From Ideonella Sakaiensis

All present enzymatic activity of Crystal Structure of Petase N37D/S121E/R132E/A171C/A180V/P181V/D186H/S193C/A202C/V211C/S214Y/R224 E/N233C/S242T/N246D/N275C/S282C/F284C Mutant From Ideonella Sakaiensis:
3.1.1.101;

Protein crystallography data

The structure of Crystal Structure of Petase N37D/S121E/R132E/A171C/A180V/P181V/D186H/S193C/A202C/V211C/S214Y/R224 E/N233C/S242T/N246D/N275C/S282C/F284C Mutant From Ideonella Sakaiensis, PDB code: 8h5l was solved by S.H.Lee, H.Seo, K.-J.Kim, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.97 / 1.70
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 100.168, 51.546, 100.37, 90, 119.09, 90
R / Rfree (%) 15.5 / 18.5

Other elements in 8h5l:

The structure of Crystal Structure of Petase N37D/S121E/R132E/A171C/A180V/P181V/D186H/S193C/A202C/V211C/S214Y/R224 E/N233C/S242T/N246D/N275C/S282C/F284C Mutant From Ideonella Sakaiensis also contains other interesting chemical elements:

Iodine (I) 8 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of Petase N37D/S121E/R132E/A171C/A180V/P181V/D186H/S193C/A202C/V211C/S214Y/R224 E/N233C/S242T/N246D/N275C/S282C/F284C Mutant From Ideonella Sakaiensis (pdb code 8h5l). 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 Petase N37D/S121E/R132E/A171C/A180V/P181V/D186H/S193C/A202C/V211C/S214Y/R224 E/N233C/S242T/N246D/N275C/S282C/F284C Mutant From Ideonella Sakaiensis, PDB code: 8h5l:
Jump to Potassium binding site number: 1; 2; 3;

Potassium binding site 1 out of 3 in 8h5l

Go back to Potassium Binding Sites List in 8h5l
Potassium binding site 1 out of 3 in the Crystal Structure of Petase N37D/S121E/R132E/A171C/A180V/P181V/D186H/S193C/A202C/V211C/S214Y/R224 E/N233C/S242T/N246D/N275C/S282C/F284C Mutant From Ideonella Sakaiensis


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 Petase N37D/S121E/R132E/A171C/A180V/P181V/D186H/S193C/A202C/V211C/S214Y/R224 E/N233C/S242T/N246D/N275C/S282C/F284C Mutant From Ideonella Sakaiensis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1201

b:24.8
occ:1.00
 OG A:SER58 2.8 21.6 0.5
I A:IOD1204 3.2 30.1 1.0
N A:ARG59 3.6 14.3 0.5
N A:ARG59 3.6 12.4 0.5
NH1 A:ARG59 3.8 23.0 0.5
NE2 A:GLN133 3.8 7.0 1.0
CB A:SER58 4.0 17.6 0.5
O A:HOH1654 4.0 30.4 1.0
N A:SER58 4.0 13.6 0.5
N A:SER58 4.0 12.4 0.5
O A:ARG59 4.1 12.0 0.5
O A:ARG59 4.2 12.9 0.5
CG1 A:VAL57 4.2 11.3 1.0
CB A:ARG59 4.2 18.4 0.5
CA A:ARG59 4.3 15.4 0.5
CA A:ARG59 4.3 13.4 0.5
CA A:SER58 4.3 15.6 0.5
O A:HOH1440 4.4 22.2 1.0
CB A:ARG59 4.4 15.2 0.5
CB A:SER58 4.4 14.3 0.5
C A:SER58 4.5 15.8 0.5
CA A:SER58 4.5 13.5 0.5
C A:ARG59 4.5 12.9 0.5
C A:ARG59 4.5 14.0 0.5
CD2 A:LEU137 4.5 13.2 1.0
CZ A:ARG59 4.5 23.9 0.5
C A:SER58 4.5 13.7 0.5
NE A:ARG59 4.6 21.9 0.5
C A:VAL57 4.9 11.8 1.0
CD A:GLN133 4.9 6.7 1.0

Potassium binding site 2 out of 3 in 8h5l

Go back to Potassium Binding Sites List in 8h5l
Potassium binding site 2 out of 3 in the Crystal Structure of Petase N37D/S121E/R132E/A171C/A180V/P181V/D186H/S193C/A202C/V211C/S214Y/R224 E/N233C/S242T/N246D/N275C/S282C/F284C Mutant From Ideonella Sakaiensis


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 Petase N37D/S121E/R132E/A171C/A180V/P181V/D186H/S193C/A202C/V211C/S214Y/R224 E/N233C/S242T/N246D/N275C/S282C/F284C Mutant From Ideonella Sakaiensis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1202

b:31.5
occ:1.00
 O A:HOH1658 3.0 25.0 1.0
OG A:SER54 3.4 13.9 1.0
O A:HOH1660 3.7 26.2 1.0
CG1 A:VAL52 3.9 11.8 1.0
CB A:SER54 4.0 11.3 1.0
O A:HOH1513 4.0 35.4 1.0
CD2 A:TYR69 4.1 9.8 1.0
CE2 A:TYR69 4.1 10.0 1.0
O A:VAL52 4.3 11.4 1.0
C A:ARG53 4.4 10.2 1.0
N A:SER54 4.4 10.2 1.0
CG A:PRO99 4.6 11.0 1.0
C A:VAL52 4.7 10.6 1.0
CA A:ARG53 4.7 10.2 1.0
CB A:VAL52 4.7 11.6 1.0
O A:HOH1677 4.8 36.2 1.0
O A:ARG53 4.8 9.5 1.0
O A:HOH1545 4.9 18.7 1.0
CA A:SER54 4.9 11.4 1.0
N A:ARG53 4.9 9.9 1.0
CB A:PRO99 5.0 11.1 1.0

Potassium binding site 3 out of 3 in 8h5l

Go back to Potassium Binding Sites List in 8h5l
Potassium binding site 3 out of 3 in the Crystal Structure of Petase N37D/S121E/R132E/A171C/A180V/P181V/D186H/S193C/A202C/V211C/S214Y/R224 E/N233C/S242T/N246D/N275C/S282C/F284C Mutant From Ideonella Sakaiensis


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 Petase N37D/S121E/R132E/A171C/A180V/P181V/D186H/S193C/A202C/V211C/S214Y/R224 E/N233C/S242T/N246D/N275C/S282C/F284C Mutant From Ideonella Sakaiensis within 5.0Å range:
probe atom residue distance (Å) B Occ
E:K1501

b:31.2
occ:1.00
 OG E:SER54 3.6 22.5 1.0
O E:HOH1894 3.6 27.7 1.0
CG1 E:VAL52 3.9 25.0 1.0
CB E:SER54 4.1 20.1 1.0
CD2 E:TYR69 4.1 13.2 1.0
O E:VAL52 4.1 21.9 1.0
C E:ARG53 4.2 17.3 1.0
N E:SER54 4.3 18.0 1.0
CE2 E:TYR69 4.3 12.4 1.0
CA E:ARG53 4.4 18.9 1.0
C E:VAL52 4.5 22.1 1.0
O E:ARG53 4.6 16.7 1.0
CB E:VAL52 4.7 23.6 1.0
N E:ARG53 4.7 19.0 1.0
CG E:PRO99 4.7 15.8 1.0
CA E:SER54 4.8 20.3 1.0
O E:HOH1783 4.9 26.8 1.0
CB E:PRO99 5.0 16.0 1.0

Reference:

S.H.Lee, H.Seo, K.J.Kim. A Case of Balance Engineering Exhibits Kinetic Relationship Between Mesophilic and Thermophilic Poly(Ethylene Terephthalate) Depolymerases. To Be Published.
Page generated: Mon Aug 12 23:52:32 2024

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