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Potassium in PDB 7jzf: Dihydrodipicolinate Synthase Mutant S48F with Pyruvate in the Catalytic Site

Enzymatic activity of Dihydrodipicolinate Synthase Mutant S48F with Pyruvate in the Catalytic Site

All present enzymatic activity of Dihydrodipicolinate Synthase Mutant S48F with Pyruvate in the Catalytic Site:
4.3.3.7;

Protein crystallography data

The structure of Dihydrodipicolinate Synthase Mutant S48F with Pyruvate in the Catalytic Site, PDB code: 7jzf was solved by A.J.Board, R.C.J.Dobson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 33.23 / 1.82
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 120.679, 120.679, 110.571, 90, 90, 120
R / Rfree (%) 14.4 / 17.4

Potassium Binding Sites:

The binding sites of Potassium atom in the Dihydrodipicolinate Synthase Mutant S48F with Pyruvate in the Catalytic Site (pdb code 7jzf). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Dihydrodipicolinate Synthase Mutant S48F with Pyruvate in the Catalytic Site, PDB code: 7jzf:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in 7jzf

Go back to Potassium Binding Sites List in 7jzf
Potassium binding site 1 out of 4 in the Dihydrodipicolinate Synthase Mutant S48F with Pyruvate in the Catalytic Site


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Dihydrodipicolinate Synthase Mutant S48F with Pyruvate in the Catalytic Site within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K301

b:25.3
occ:1.00
 O A:ILE157 2.6 19.5 1.0
O A:VAL154 2.6 25.0 1.0
O A:ALA152 2.7 23.0 1.0
O A:HOH628 2.7 32.9 1.0
O A:HOH658 2.8 54.6 1.0
O A:LYS155 3.0 25.6 1.0
C A:LYS155 3.6 26.1 1.0
C A:ILE157 3.7 18.9 1.0
C A:VAL154 3.7 22.3 1.0
C A:ALA152 3.8 22.8 1.0
CA A:LYS155 4.0 28.6 1.0
N A:ILE157 4.1 20.2 1.0
O A:HOH623 4.3 44.1 1.0
N A:LYS155 4.3 26.1 1.0
CA A:ILE157 4.4 17.9 1.0
CA A:ALA152 4.4 19.1 1.0
N A:ASN156 4.5 22.5 1.0
N A:VAL154 4.5 24.2 1.0
N A:ILE158 4.6 18.0 1.0
C A:LYS153 4.6 27.2 1.0
CA A:ILE158 4.6 19.9 1.0
CG2 A:ILE158 4.7 29.0 1.0
N A:LYS153 4.8 19.5 1.0
CA A:VAL154 4.8 23.6 1.0
CB A:ILE157 4.9 18.3 1.0
C A:ASN156 4.9 24.1 1.0
CA A:LYS153 4.9 25.3 1.0

Potassium binding site 2 out of 4 in 7jzf

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Potassium binding site 2 out of 4 in the Dihydrodipicolinate Synthase Mutant S48F with Pyruvate in the Catalytic Site


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Dihydrodipicolinate Synthase Mutant S48F with Pyruvate in the Catalytic Site within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K302

b:27.3
occ:1.00
 OD1 A:ASN80 2.6 15.3 1.0
O B:ALA49 2.6 25.9 1.0
O A:HOH650 2.7 31.3 1.0
O B:HOH479 2.8 26.2 1.0
O B:HOH690 3.1 41.8 1.0
O A:HOH636 3.2 37.7 1.0
O A:HOH606 3.3 30.4 1.0
CG A:ASN80 3.7 16.8 1.0
C B:ALA49 3.8 22.5 1.0
ND2 A:ASN80 4.2 16.1 1.0
CA B:ALA49 4.4 22.0 1.0
CB A:ALA81 4.5 17.5 1.0
N A:ALA81 4.5 15.0 1.0
N B:THR50 4.8 17.5 1.0
O B:HOH674 4.8 29.7 1.0
N A:ASN80 4.9 15.2 1.0
C A:ASN80 4.9 18.3 1.0
CA B:THR50 5.0 18.9 1.0
O B:PHE48 5.0 21.5 1.0
O B:HOH681 5.0 44.5 1.0

Potassium binding site 3 out of 4 in 7jzf

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Potassium binding site 3 out of 4 in the Dihydrodipicolinate Synthase Mutant S48F with Pyruvate in the Catalytic Site


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Dihydrodipicolinate Synthase Mutant S48F with Pyruvate in the Catalytic Site within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K301

b:21.0
occ:1.00
 O B:ILE157 2.6 13.5 1.0
O B:ALA152 2.7 15.8 1.0
O B:VAL154 2.7 21.9 1.0
O B:HOH661 2.7 29.3 1.0
O B:HOH667 3.0 48.0 1.0
O B:LYS155 3.2 18.8 1.0
C B:ALA152 3.7 16.3 1.0
C B:LYS155 3.7 21.9 1.0
C B:ILE157 3.7 14.4 1.0
C B:VAL154 3.8 22.7 1.0
CA B:LYS155 4.1 23.9 1.0
O B:HOH533 4.1 40.2 1.0
N B:ILE157 4.2 14.4 1.0
CA B:ALA152 4.3 15.1 1.0
N B:LYS155 4.4 22.6 1.0
CA B:ILE157 4.5 14.4 1.0
O B:HOH663 4.6 41.0 1.0
N B:ASN156 4.6 19.1 1.0
N B:VAL154 4.6 21.4 1.0
C B:LYS153 4.6 23.0 1.0
N B:ILE158 4.7 13.8 1.0
CA B:ILE158 4.7 15.8 1.0
N B:LYS153 4.7 17.3 1.0
CA B:VAL154 4.8 21.4 1.0
CG2 B:ILE158 4.8 24.9 1.0
CD1 B:PHE181 4.9 14.1 1.0
CB B:ILE157 4.9 13.7 1.0
O B:LYS153 4.9 21.0 1.0
CA B:LYS153 5.0 18.7 1.0
CB B:ALA152 5.0 14.4 1.0
C B:ASN156 5.0 14.5 1.0

Potassium binding site 4 out of 4 in 7jzf

Go back to Potassium Binding Sites List in 7jzf
Potassium binding site 4 out of 4 in the Dihydrodipicolinate Synthase Mutant S48F with Pyruvate in the Catalytic Site


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Dihydrodipicolinate Synthase Mutant S48F with Pyruvate in the Catalytic Site within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K302

b:32.6
occ:1.00
 O B:THR126 2.7 21.0 1.0
O B:ALA123 2.8 16.8 1.0
O B:HOH678 2.8 44.0 1.0
O B:HOH409 2.9 39.1 1.0
O B:HOH497 2.9 24.6 1.0
O B:GLU124 3.2 22.7 1.0
C B:GLU124 3.7 22.8 1.0
C B:THR126 3.8 20.8 1.0
ND2 B:ASN156 3.9 19.6 1.0
OD1 B:ASN156 3.9 22.1 1.0
C B:ALA123 3.9 16.6 1.0
CA B:GLU124 3.9 20.6 1.0
O B:HOH565 4.0 38.2 1.0
CG B:ASN156 4.1 17.9 1.0
N B:THR126 4.3 18.1 1.0
N B:GLU124 4.3 16.5 1.0
OD1 B:ASP127 4.4 34.0 1.0
N B:HIS125 4.6 19.2 1.0
N B:ASP127 4.6 21.4 1.0
CA B:ASP127 4.7 23.1 1.0
CA B:THR126 4.7 19.4 1.0

Reference:

A.J.Board, R.C.J.Dobson. Mapping the Uncharted Water Channel of Dhdps To Be Published.
Page generated: Sat Aug 9 13:29:22 2025

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