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Potassium in PDB 4e1v: X-Ray Structure of the Uridine Phosphorylase From Salmonella Typhimurium in Complex with 5-Fluorouracil at 2.15 A Resolution

Enzymatic activity of X-Ray Structure of the Uridine Phosphorylase From Salmonella Typhimurium in Complex with 5-Fluorouracil at 2.15 A Resolution

All present enzymatic activity of X-Ray Structure of the Uridine Phosphorylase From Salmonella Typhimurium in Complex with 5-Fluorouracil at 2.15 A Resolution:
2.4.2.3;

Protein crystallography data

The structure of X-Ray Structure of the Uridine Phosphorylase From Salmonella Typhimurium in Complex with 5-Fluorouracil at 2.15 A Resolution, PDB code: 4e1v was solved by A.A.Lashkov, S.E.Sotnichenko, I.I.Prokofev, A.G.Gabdoulkhakov, A.M.Mikhailov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 28.88 / 2.15
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 158.490, 93.210, 149.970, 90.00, 90.82, 90.00
R / Rfree (%) 19.4 / 23.8

Other elements in 4e1v:

The structure of X-Ray Structure of the Uridine Phosphorylase From Salmonella Typhimurium in Complex with 5-Fluorouracil at 2.15 A Resolution also contains other interesting chemical elements:

Fluorine (F) 8 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the X-Ray Structure of the Uridine Phosphorylase From Salmonella Typhimurium in Complex with 5-Fluorouracil at 2.15 A Resolution (pdb code 4e1v). 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 the Uridine Phosphorylase From Salmonella Typhimurium in Complex with 5-Fluorouracil at 2.15 A Resolution, PDB code: 4e1v:
Jump to Potassium binding site number: 1; 2; 3;

Potassium binding site 1 out of 3 in 4e1v

Go back to Potassium Binding Sites List in 4e1v
Potassium binding site 1 out of 3 in the X-Ray Structure of the Uridine Phosphorylase From Salmonella Typhimurium in Complex with 5-Fluorouracil at 2.15 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 the Uridine Phosphorylase From Salmonella Typhimurium in Complex with 5-Fluorouracil at 2.15 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1303

b:61.2
occ:1.00
 OE2 A:GLU1049 2.6 47.8 1.0
OE2 B:GLU1049 2.7 63.6 1.0
O A:ILE1069 3.3 34.3 1.0
O B:ILE1069 3.3 34.3 1.0
OG A:SER1073 3.3 33.9 1.0
OG B:SER1073 3.4 36.7 1.0
CD B:GLU1049 3.6 62.8 1.0
CD A:GLU1049 3.7 47.9 1.0
N B:ILE1069 3.7 40.4 1.0
CB A:SER1073 3.7 31.7 1.0
N A:ILE1069 3.7 39.5 1.0
CB B:SER1073 3.9 35.7 1.0
CG A:GLU1049 4.1 46.1 1.0
C B:ILE1069 4.2 37.4 1.0
C A:ILE1069 4.2 35.6 1.0
CA A:GLY1068 4.2 42.3 1.0
OE1 B:GLU1049 4.2 62.6 1.0
C A:GLY1068 4.3 42.4 1.0
CA B:GLY1068 4.3 42.5 1.0
C B:GLY1068 4.3 42.3 1.0
CA B:ILE1069 4.4 39.6 1.0
CG B:GLU1049 4.4 61.2 1.0
CA A:ILE1069 4.4 38.1 1.0
CB A:ILE1069 4.7 37.9 1.0
O A:THR1067 4.7 40.7 1.0
OE1 A:GLU1049 4.8 49.0 1.0
CB B:ILE1069 4.8 40.1 1.0
CB A:GLU1049 4.8 44.6 1.0
CB B:GLU1049 4.9 57.5 1.0
O B:THR1067 4.9 46.5 1.0

Potassium binding site 2 out of 3 in 4e1v

Go back to Potassium Binding Sites List in 4e1v
Potassium binding site 2 out of 3 in the X-Ray Structure of the Uridine Phosphorylase From Salmonella Typhimurium in Complex with 5-Fluorouracil at 2.15 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 the Uridine Phosphorylase From Salmonella Typhimurium in Complex with 5-Fluorouracil at 2.15 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
E:K1303

b:50.6
occ:1.00
 OE1 E:GLU1049 2.6 61.1 1.0
OE2 F:GLU1049 2.6 44.3 1.0
OG E:SER1073 3.2 30.6 1.0
O F:ILE1069 3.3 35.5 1.0
OG F:SER1073 3.3 29.1 1.0
O E:ILE1069 3.3 31.3 1.0
N E:ILE1069 3.6 31.9 1.0
N F:ILE1069 3.6 36.7 1.0
CD E:GLU1049 3.7 61.2 1.0
CD F:GLU1049 3.7 48.0 1.0
CB F:SER1073 3.7 29.0 1.0
CB E:SER1073 3.8 29.4 1.0
CA F:GLY1068 4.1 37.6 1.0
CG F:GLU1049 4.2 49.4 1.0
C E:ILE1069 4.2 29.8 1.0
C F:ILE1069 4.2 35.2 1.0
C F:GLY1068 4.2 36.9 1.0
CA E:GLY1068 4.3 36.5 1.0
C E:GLY1068 4.3 35.1 1.0
CA E:ILE1069 4.3 30.6 1.0
CG E:GLU1049 4.3 58.9 1.0
CA F:ILE1069 4.3 35.2 1.0
OE2 E:GLU1049 4.6 63.4 1.0
CB F:ILE1069 4.7 34.3 1.0
CB E:ILE1069 4.7 30.4 1.0
O F:THR1067 4.7 35.9 1.0
CB E:GLU1049 4.8 54.5 1.0
CB F:GLU1049 4.8 45.7 1.0
OE1 F:GLU1049 4.8 50.7 1.0
O E:THR1067 4.9 40.9 1.0

Potassium binding site 3 out of 3 in 4e1v

Go back to Potassium Binding Sites List in 4e1v
Potassium binding site 3 out of 3 in the X-Ray Structure of the Uridine Phosphorylase From Salmonella Typhimurium in Complex with 5-Fluorouracil at 2.15 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 the Uridine Phosphorylase From Salmonella Typhimurium in Complex with 5-Fluorouracil at 2.15 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K1302

b:0.6
occ:1.00
 OE2 D:GLU1049 2.5 56.7 1.0
OE1 C:GLU1049 2.6 54.8 1.0
O C:ILE1069 3.2 35.4 1.0
OG D:SER1073 3.2 32.5 1.0
O D:ILE1069 3.3 35.0 1.0
OG C:SER1073 3.3 31.0 1.0
N D:ILE1069 3.6 34.6 1.0
CD D:GLU1049 3.6 56.1 1.0
CD C:GLU1049 3.7 54.3 1.0
N C:ILE1069 3.7 38.1 1.0
CB C:SER1073 3.8 29.6 1.0
CB D:SER1073 3.8 30.9 1.0
C C:ILE1069 4.1 36.6 1.0
C D:ILE1069 4.1 34.8 1.0
CG D:GLU1049 4.1 52.7 1.0
CG C:GLU1049 4.2 50.3 1.0
CA D:GLY1068 4.2 37.8 1.0
C D:GLY1068 4.2 36.0 1.0
CA C:GLY1068 4.2 38.4 1.0
CA D:ILE1069 4.3 34.8 1.0
C C:GLY1068 4.3 38.0 1.0
CA C:ILE1069 4.4 38.2 1.0
CB D:ILE1069 4.6 34.5 1.0
OE2 C:GLU1049 4.7 55.5 1.0
OE1 D:GLU1049 4.7 57.8 1.0
CB C:ILE1069 4.7 39.6 1.0
CB C:GLU1049 4.8 48.3 1.0
O D:THR1067 4.8 40.4 1.0
O C:THR1067 4.9 38.5 1.0

Reference:

A.A.Lashkov, S.E.Sotnichenko, I.I.Prokofiev, A.G.Gabdulkhakov, I.I.Agapov, A.A.Shtil, C.Betzel, A.S.Mironov, A.M.Mikhailov. X-Ray Structure of Salmonella Typhimurium Uridine Phosphorylase Complexed with 5-Fluorouracil and Molecular Modelling of the Complex of 5-Fluorouracil with Uridine Phosphorylase From Vibrio Cholerae. Acta Crystallogr.,Sect.D V. 68 968 2012.
ISSN: ISSN 0907-4449
PubMed: 22868762
DOI: 10.1107/S090744491201815X
Page generated: Mon Aug 12 10:33:55 2024

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