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Potassium in PDB 3vfl: Structure, Function, Stability and Knockout Phenotype of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae

Enzymatic activity of Structure, Function, Stability and Knockout Phenotype of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae

All present enzymatic activity of Structure, Function, Stability and Knockout Phenotype of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae:
4.2.1.52;

Protein crystallography data

The structure of Structure, Function, Stability and Knockout Phenotype of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae, PDB code: 3vfl was solved by M.A.Gorman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.83 / 1.91
Space group P 2 21 21
Cell size a, b, c (Å), α, β, γ (°) 62.357, 105.332, 105.510, 90.00, 90.00, 90.00
R / Rfree (%) 16.5 / 21.2

Potassium Binding Sites:

The binding sites of Potassium atom in the Structure, Function, Stability and Knockout Phenotype of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae (pdb code 3vfl). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Structure, Function, Stability and Knockout Phenotype of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae, PDB code: 3vfl:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in 3vfl

Go back to Potassium Binding Sites List in 3vfl
Potassium binding site 1 out of 4 in the Structure, Function, Stability and Knockout Phenotype of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Structure, Function, Stability and Knockout Phenotype of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K401

b:44.4
occ:1.00
 O A:HIS161 2.5 34.7 1.0
O A:ILE164 2.5 33.7 1.0
O A:ALA159 2.5 26.1 1.0
C A:ILE164 3.6 27.6 1.0
C A:HIS161 3.6 35.2 1.0
C A:ALA159 3.6 27.8 1.0
N A:ILE164 4.2 30.3 1.0
C A:ASP160 4.3 35.3 1.0
CA A:PRO162 4.3 32.6 1.0
N A:HIS161 4.3 35.4 1.0
N A:PRO162 4.3 35.8 1.0
CA A:ILE164 4.3 27.4 1.0
C A:PRO162 4.3 26.7 1.0
CA A:ALA159 4.4 25.5 1.0
O A:GLU186 4.4 25.8 1.0
O A:PRO162 4.5 27.1 1.0
CA A:ILE165 4.5 26.2 1.0
N A:ASP160 4.5 33.8 1.0
N A:ILE165 4.5 24.6 1.0
CB A:ILE164 4.5 29.6 1.0
O A:ASP160 4.6 38.3 1.0
CA A:ASP160 4.6 35.4 1.0
CA A:HIS161 4.6 31.7 1.0
CD1 A:PHE187 4.6 28.6 1.0
O A:GLU185 4.8 33.5 1.0
N A:ASN163 4.9 25.1 1.0
O A:LEU158 5.0 27.1 1.0
CG A:PRO184 5.0 37.6 1.0

Potassium binding site 2 out of 4 in 3vfl

Go back to Potassium Binding Sites List in 3vfl
Potassium binding site 2 out of 4 in the Structure, Function, Stability and Knockout Phenotype of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Structure, Function, Stability and Knockout Phenotype of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K402

b:36.4
occ:1.00
 OE2 A:GLU62 2.4 28.0 1.0
O A:SER54 2.5 24.0 1.0
O A:LEU57 2.5 25.8 1.0
CD A:GLU62 3.4 31.5 1.0
C A:SER54 3.6 23.8 1.0
C A:LEU57 3.7 24.5 1.0
OE1 A:GLU62 4.1 33.3 1.0
N A:LEU57 4.1 20.7 1.0
CB A:LEU57 4.2 24.7 1.0
CA A:LEU57 4.2 22.9 1.0
CG A:GLU62 4.3 28.6 1.0
CA A:SER54 4.3 21.8 1.0
O A:HOH522 4.4 22.5 1.0
C A:PRO55 4.5 19.7 1.0
N A:PRO55 4.6 21.1 1.0
O A:PRO55 4.6 19.0 1.0
CA A:PRO55 4.6 20.6 1.0
CB A:SER54 4.7 23.6 1.0
N A:THR58 4.8 25.5 1.0
C A:THR58 4.8 27.3 1.0
O A:THR58 4.8 31.8 1.0
CA A:THR58 4.9 31.2 1.0
N A:THR56 4.9 18.7 1.0

Potassium binding site 3 out of 4 in 3vfl

Go back to Potassium Binding Sites List in 3vfl
Potassium binding site 3 out of 4 in the Structure, Function, Stability and Knockout Phenotype of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Structure, Function, Stability and Knockout Phenotype of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K401

b:46.6
occ:1.00
 O B:ILE164 2.3 21.1 1.0
O B:ALA159 2.5 24.2 1.0
O B:HIS161 2.6 24.9 1.0
C B:ILE164 3.5 24.4 1.0
C B:ALA159 3.6 28.5 1.0
C B:HIS161 3.7 29.0 1.0
N B:ILE164 4.0 30.0 1.0
CA B:PRO162 4.1 26.9 1.0
CA B:ILE164 4.2 30.5 1.0
O B:GLU186 4.3 26.9 1.0
C B:PRO162 4.3 27.6 1.0
C B:ASP160 4.3 29.2 1.0
N B:PRO162 4.4 27.4 1.0
N B:ILE165 4.4 27.1 1.0
N B:HIS161 4.4 24.8 1.0
CD1 B:PHE187 4.5 27.9 1.0
CA B:ILE165 4.5 24.1 1.0
O B:PRO162 4.5 29.4 1.0
CA B:ALA159 4.5 26.0 1.0
N B:ASP160 4.6 31.0 1.0
O B:ASP160 4.6 33.1 1.0
CB B:ILE164 4.6 29.5 1.0
CA B:ASP160 4.6 32.7 1.0
CA B:HIS161 4.7 23.7 1.0
O B:GLU185 4.8 25.1 1.0
O B:LEU158 4.8 24.5 1.0
N B:ASN163 4.8 29.6 1.0
CG2 B:ILE165 5.0 26.1 1.0
CG2 B:ILE164 5.0 30.2 1.0
CG B:PRO184 5.0 29.3 1.0

Potassium binding site 4 out of 4 in 3vfl

Go back to Potassium Binding Sites List in 3vfl
Potassium binding site 4 out of 4 in the Structure, Function, Stability and Knockout Phenotype of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Structure, Function, Stability and Knockout Phenotype of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K402

b:48.3
occ:1.00
 O B:LEU57 2.5 25.4 1.0
O B:HOH572 2.5 20.2 1.0
O B:SER54 2.6 25.4 1.0
OE2 B:GLU62 2.7 29.1 1.0
C B:LEU57 3.7 27.2 1.0
C B:SER54 3.8 23.9 1.0
CD B:GLU62 3.8 35.7 1.0
O A:HOH574 4.2 24.9 1.0
N B:LEU57 4.2 27.0 1.0
CA B:LEU57 4.3 27.0 1.0
CB B:LEU57 4.4 27.9 1.0
C B:PRO55 4.5 22.2 1.0
O B:HOH559 4.6 23.3 1.0
CG B:GLU62 4.6 32.7 1.0
CA B:SER54 4.6 22.9 1.0
O B:PRO55 4.6 20.0 1.0
OE1 B:GLU62 4.6 33.1 1.0
CA B:PRO55 4.7 22.6 1.0
N B:THR58 4.7 30.8 1.0
C B:THR58 4.7 31.2 1.0
O A:HOH534 4.7 42.2 1.0
N B:PRO55 4.7 22.8 1.0
CB B:SER54 4.8 23.9 1.0
CA B:THR58 4.8 27.0 1.0
O B:THR58 4.8 31.9 1.0

Reference:

C.Dogovski, M.A.Gorman, N.E.Ketaren, J.Praszkier, G.Bryant, J.Yang, M.D.W.Griffin, F.G.Pearce, S.K.Bhargava, R.C.J.Dobson, C.A.Hutton, J.A.Gerrard, R.M.Robins-Browne, G.B.Jameson, M.W.Parker, M.A.Perugini. Structure, Function, Stability and Knockout Phenotype of Dihydrodipicolinate Synthase From Streptococcus Pneumoniae To Be Published.
Page generated: Mon Aug 12 09:48:39 2024

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