Atomistry » Potassium » PDB 5ksd-5mq0 » 5lok
Atomistry »
  Potassium »
    PDB 5ksd-5mq0 »
      5lok »

Potassium in PDB 5lok: X-Ray Structure of Uridine Phosphorylase From Vibrio Cholerae in Complex with Cytidine and Cytosine at 1.11 A Resolution

Enzymatic activity of X-Ray Structure of Uridine Phosphorylase From Vibrio Cholerae in Complex with Cytidine and Cytosine at 1.11 A Resolution

All present enzymatic activity of X-Ray Structure of Uridine Phosphorylase From Vibrio Cholerae in Complex with Cytidine and Cytosine at 1.11 A Resolution:
2.4.2.3;

Protein crystallography data

The structure of X-Ray Structure of Uridine Phosphorylase From Vibrio Cholerae in Complex with Cytidine and Cytosine at 1.11 A Resolution, PDB code: 5lok was solved by I.I.Prokofev, A.A.Lashkov, A.G.Gabdoulkhakov, M.V.Dontsova, C.Betzel, A.M.Mikhailov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.68 / 1.11
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 64.258, 71.772, 89.228, 69.35, 72.17, 85.78
R / Rfree (%) 11.4 / 13.6

Other elements in 5lok:

The structure of X-Ray Structure of Uridine Phosphorylase From Vibrio Cholerae in Complex with Cytidine and Cytosine at 1.11 A Resolution also contains other interesting chemical elements:

Chlorine (Cl) 6 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the X-Ray Structure of Uridine Phosphorylase From Vibrio Cholerae in Complex with Cytidine and Cytosine at 1.11 A Resolution (pdb code 5lok). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 3 binding sites of Potassium where determined in the X-Ray Structure of Uridine Phosphorylase From Vibrio Cholerae in Complex with Cytidine and Cytosine at 1.11 A Resolution, PDB code: 5lok:
Jump to Potassium binding site number: 1; 2; 3;

Potassium binding site 1 out of 3 in 5lok

Go back to Potassium Binding Sites List in 5lok
Potassium binding site 1 out of 3 in the X-Ray Structure of Uridine Phosphorylase From Vibrio Cholerae in Complex with Cytidine and Cytosine at 1.11 A Resolution


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of X-Ray Structure of Uridine Phosphorylase From Vibrio Cholerae in Complex with Cytidine and Cytosine at 1.11 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K302

b:11.4
occ:0.43
OE2 A:GLU48 2.7 10.0 1.0
OE2 B:GLU48 2.8 10.2 1.0
OG B:SER72 2.9 8.0 1.0
OG A:SER72 2.9 8.0 1.0
O A:ILE68 2.9 8.7 1.0
HB3 B:SER72 2.9 9.2 1.0
HB3 A:SER72 3.0 9.9 1.0
O B:ILE68 3.0 7.9 1.0
H B:ILE68 3.2 10.1 1.0
H A:ILE68 3.2 10.3 1.0
HA3 B:GLY67 3.3 11.1 1.0
HA3 A:GLY67 3.3 11.6 1.0
CB B:SER72 3.4 7.7 1.0
CB A:SER72 3.4 8.3 1.0
O B:HOH466 3.6 8.4 0.5
O B:HOH466 3.6 7.6 0.5
N A:ILE68 3.6 8.6 1.0
N B:ILE68 3.6 8.4 1.0
HB2 B:SER72 3.7 9.2 1.0
HB2 A:SER72 3.7 9.9 1.0
HG3 B:GLU48 3.8 13.7 1.0
CD A:GLU48 3.8 11.2 1.0
HG3 A:GLU48 3.8 13.7 1.0
CD B:GLU48 3.9 11.1 1.0
C B:ILE68 3.9 7.5 1.0
C A:ILE68 3.9 7.9 1.0
HB B:ILE68 4.1 10.1 1.0
CA A:GLY67 4.1 9.7 1.0
CA B:GLY67 4.1 9.3 1.0
HB A:ILE68 4.1 10.5 1.0
C A:GLY67 4.2 9.0 1.0
C B:GLY67 4.2 9.0 1.0
CA B:ILE68 4.3 8.1 1.0
CA A:ILE68 4.3 8.4 1.0
CG A:GLU48 4.3 11.4 1.0
CG B:GLU48 4.4 11.4 1.0
H B:SER72 4.4 8.3 1.0
HA2 A:GLY67 4.4 11.6 1.0
H A:SER72 4.4 9.1 1.0
HA2 B:GLY67 4.4 11.1 1.0
HB3 A:GLU48 4.5 15.5 1.0
CB B:ILE68 4.7 8.4 1.0
HB3 B:GLU48 4.7 14.9 1.0
CB A:ILE68 4.8 8.8 1.0
CA B:SER72 4.8 7.1 1.0
O A:THR66 4.8 10.0 1.0
CA A:SER72 4.8 8.0 1.0
O B:THR66 4.8 9.4 1.0
OE1 A:GLU48 4.8 12.4 1.0
OE1 B:GLU48 4.9 12.8 1.0
CB A:GLU48 4.9 12.9 1.0
N B:SER72 4.9 6.9 1.0
N A:SER72 5.0 7.5 1.0
HB2 A:GLU48 5.0 15.5 1.0

Potassium binding site 2 out of 3 in 5lok

Go back to Potassium Binding Sites List in 5lok
Potassium binding site 2 out of 3 in the X-Ray Structure of Uridine Phosphorylase From Vibrio Cholerae in Complex with Cytidine and Cytosine at 1.11 A Resolution


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of X-Ray Structure of Uridine Phosphorylase From Vibrio Cholerae in Complex with Cytidine and Cytosine at 1.11 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K302

b:13.3
occ:0.45
OE2 D:GLU48 2.8 12.6 1.0
OE2 C:GLU48 2.8 12.1 1.0
OG D:SER72 2.9 10.3 1.0
OG C:SER72 2.9 9.6 1.0
O C:ILE68 2.9 9.3 1.0
HB3 C:SER72 2.9 11.9 1.0
O D:ILE68 2.9 10.0 1.0
HB3 D:SER72 3.0 12.3 1.0
H C:ILE68 3.2 12.2 1.0
H D:ILE68 3.2 12.0 1.0
HA3 D:GLY67 3.3 13.3 1.0
HA3 C:GLY67 3.4 13.1 1.0
CB C:SER72 3.4 9.9 1.0
CB D:SER72 3.4 10.2 1.0
N C:ILE68 3.6 10.2 1.0
N D:ILE68 3.6 10.0 1.0
O C:HOH488 3.6 9.0 0.5
O C:HOH488 3.7 9.1 0.5
HB2 C:SER72 3.7 11.9 1.0
HB2 D:SER72 3.7 12.3 1.0
HG3 D:GLU48 3.8 17.1 1.0
CD D:GLU48 3.9 13.2 1.0
HG3 C:GLU48 3.9 16.4 1.0
CD C:GLU48 3.9 12.8 1.0
C D:ILE68 3.9 9.0 1.0
C C:ILE68 3.9 8.8 1.0
CA D:GLY67 4.1 11.1 1.0
HB D:ILE68 4.1 11.7 1.0
HB C:ILE68 4.1 11.7 1.0
CA C:GLY67 4.1 10.9 1.0
C D:GLY67 4.2 10.1 1.0
C C:GLY67 4.2 10.1 1.0
CA C:ILE68 4.3 9.5 1.0
CA D:ILE68 4.3 9.9 1.0
CG D:GLU48 4.3 14.3 1.0
CG C:GLU48 4.4 13.7 1.0
HA2 D:GLY67 4.4 13.3 1.0
H D:SER72 4.4 10.4 1.0
H C:SER72 4.4 9.9 1.0
HA2 C:GLY67 4.4 13.1 1.0
HB3 C:GLU48 4.6 16.8 1.0
HB3 D:GLU48 4.7 18.5 1.0
CB D:ILE68 4.7 9.8 1.0
CB C:ILE68 4.7 9.7 1.0
CA D:SER72 4.8 9.1 1.0
CA C:SER72 4.8 9.2 1.0
O D:THR66 4.8 11.2 1.0
O C:THR66 4.8 11.1 1.0
OE1 D:GLU48 4.8 14.3 1.0
OE1 C:GLU48 4.9 14.3 1.0
N D:SER72 5.0 8.7 1.0
N C:SER72 5.0 8.3 1.0
CB C:GLU48 5.0 14.0 1.0

Potassium binding site 3 out of 3 in 5lok

Go back to Potassium Binding Sites List in 5lok
Potassium binding site 3 out of 3 in the X-Ray Structure of Uridine Phosphorylase From Vibrio Cholerae in Complex with Cytidine and Cytosine at 1.11 A Resolution


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of X-Ray Structure of Uridine Phosphorylase From Vibrio Cholerae in Complex with Cytidine and Cytosine at 1.11 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
E:K304

b:12.0
occ:0.43
OE2 F:GLU48 2.8 11.8 1.0
OE2 E:GLU48 2.8 12.1 1.0
OG E:SER72 2.9 9.6 1.0
O F:ILE68 2.9 10.0 1.0
OG F:SER72 2.9 9.7 1.0
O E:ILE68 2.9 9.7 1.0
HB3 F:SER72 2.9 11.7 1.0
HB3 E:SER72 3.0 11.1 1.0
H F:ILE68 3.2 12.5 1.0
H E:ILE68 3.2 11.2 1.0
HA3 F:GLY67 3.3 12.8 1.0
HA3 E:GLY67 3.4 12.3 1.0
CB F:SER72 3.4 9.8 1.0
CB E:SER72 3.4 9.3 1.0
O F:HOH464 3.6 9.9 0.6
O F:HOH464 3.6 8.8 0.4
N F:ILE68 3.6 10.4 1.0
N E:ILE68 3.6 9.3 1.0
HB2 F:SER72 3.7 11.7 1.0
HB2 E:SER72 3.7 11.1 1.0
CD F:GLU48 3.9 13.3 1.0
HG3 F:GLU48 3.9 16.4 1.0
C F:ILE68 3.9 9.3 1.0
CD E:GLU48 3.9 13.0 1.0
C E:ILE68 3.9 9.1 1.0
HG3 E:GLU48 3.9 15.9 1.0
HB F:ILE68 4.1 12.5 1.0
HB E:ILE68 4.1 11.7 1.0
CA F:GLY67 4.1 10.7 1.0
CA E:GLY67 4.1 10.3 1.0
C F:GLY67 4.2 10.7 1.0
C E:GLY67 4.2 9.9 1.0
CA F:ILE68 4.2 10.2 1.0
CA E:ILE68 4.3 9.5 1.0
H F:SER72 4.3 10.7 1.0
CG F:GLU48 4.4 13.7 1.0
H E:SER72 4.4 10.2 1.0
CG E:GLU48 4.4 13.2 1.0
HA2 F:GLY67 4.4 12.8 1.0
HA2 E:GLY67 4.5 12.3 1.0
CB F:ILE68 4.7 10.4 1.0
HB3 E:GLU48 4.7 17.1 1.0
HB3 F:GLU48 4.7 17.9 1.0
CB E:ILE68 4.7 9.7 1.0
CA F:SER72 4.7 9.0 1.0
CA E:SER72 4.7 8.7 1.0
O F:THR66 4.8 11.5 1.0
O E:THR66 4.8 10.7 1.0
OE1 F:GLU48 4.9 14.8 1.0
OE1 E:GLU48 4.9 14.4 1.0
N F:SER72 4.9 8.9 1.0
N E:SER72 5.0 8.5 1.0

Reference:

I.I.Prokofev, A.G.Gabdoulkhakov, A.A.Lashkov, V.V.Balaev, C.Betzel, A.M.Mikhailov. X-Ray Structure of Uridine Phosphorylase From Vibrio Cholerae in Complex with Cytidine and Cytosine at 1.11 A Resolution To Be Published.
Page generated: Sat Aug 9 09:32:14 2025

Last articles

Mg in 4AJG
Mg in 4AJD
Mg in 4AI6
Mg in 4AJB
Mg in 4AII
Mg in 4AH0
Mg in 4AH1
Mg in 4AGZ
Mg in 4AG5
Mg in 4AFY
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy