Atomistry » Fluorine » PDB 1o5g-1q6m » 1pk9
Atomistry »
  Fluorine »
    PDB 1o5g-1q6m »
      1pk9 »

Fluorine in PDB 1pk9: Crystal Structure of E. Coli Purine Nucleoside Phosphorylase Complexed with 2-Fluoroadenosine and Sulfate/Phosphate

Enzymatic activity of Crystal Structure of E. Coli Purine Nucleoside Phosphorylase Complexed with 2-Fluoroadenosine and Sulfate/Phosphate

All present enzymatic activity of Crystal Structure of E. Coli Purine Nucleoside Phosphorylase Complexed with 2-Fluoroadenosine and Sulfate/Phosphate:
2.4.2.1;

Protein crystallography data

The structure of Crystal Structure of E. Coli Purine Nucleoside Phosphorylase Complexed with 2-Fluoroadenosine and Sulfate/Phosphate, PDB code: 1pk9 was solved by E.M.Bennett, C.Li, P.W.Allan, W.B.Parker, S.E.Ealick, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 6.00 / 1.90
Space group P 61 2 2
Cell size a, b, c (Å), α, β, γ (°) 122.000, 122.000, 241.900, 90.00, 90.00, 120.00
R / Rfree (%) 19.2 / 26.5

Fluorine Binding Sites:

The binding sites of Fluorine atom in the Crystal Structure of E. Coli Purine Nucleoside Phosphorylase Complexed with 2-Fluoroadenosine and Sulfate/Phosphate (pdb code 1pk9). This binding sites where shown within 5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the Crystal Structure of E. Coli Purine Nucleoside Phosphorylase Complexed with 2-Fluoroadenosine and Sulfate/Phosphate, PDB code: 1pk9:
Jump to Fluorine binding site number: 1; 2; 3;

Fluorine binding site 1 out of 3 in 1pk9

Go back to Fluorine Binding Sites List in 1pk9
Fluorine binding site 1 out of 3 in the Crystal Structure of E. Coli Purine Nucleoside Phosphorylase Complexed with 2-Fluoroadenosine and Sulfate/Phosphate


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 1 of Crystal Structure of E. Coli Purine Nucleoside Phosphorylase Complexed with 2-Fluoroadenosine and Sulfate/Phosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:F306

b:19.4
occ:1.00
F A:2FA306 0.0 19.4 1.0
C2 A:2FA306 1.3 19.4 1.0
N1 A:2FA306 2.2 19.7 1.0
N3 A:2FA306 2.3 18.3 1.0
C6 A:2FA306 3.5 19.4 1.0
C4 A:2FA306 3.5 19.0 1.0
CG A:MET180 3.5 14.6 1.0
O A:HOH356 3.5 35.6 1.0
CD2 A:PHE159 3.6 15.2 1.0
SD A:MET180 3.8 17.4 1.0
CA A:PHE159 4.0 15.8 1.0
CG1 A:VAL178 4.0 15.4 1.0
C5 A:2FA306 4.0 18.9 1.0
O A:GLU179 4.0 16.3 1.0
CG A:PHE159 4.3 15.7 1.0
CB A:ALA156 4.3 15.2 1.0
C A:GLU179 4.3 16.4 1.0
CE2 A:PHE159 4.3 16.7 1.0
CB A:PHE159 4.3 15.4 1.0
O A:HOH336 4.5 28.6 1.0
N6 A:2FA306 4.5 20.7 1.0
CA A:GLU179 4.5 15.8 1.0
O A:VAL178 4.6 15.2 1.0
C A:VAL178 4.7 15.5 1.0
N A:GLU179 4.8 15.1 1.0
N A:PHE159 4.8 17.2 1.0
N9 A:2FA306 4.8 19.1 1.0
O A:PHE159 4.8 17.8 1.0
CB A:MET180 4.9 14.9 1.0
C A:PHE159 4.9 17.4 1.0

Fluorine binding site 2 out of 3 in 1pk9

Go back to Fluorine Binding Sites List in 1pk9
Fluorine binding site 2 out of 3 in the Crystal Structure of E. Coli Purine Nucleoside Phosphorylase Complexed with 2-Fluoroadenosine and Sulfate/Phosphate


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 2 of Crystal Structure of E. Coli Purine Nucleoside Phosphorylase Complexed with 2-Fluoroadenosine and Sulfate/Phosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:F307

b:20.2
occ:1.00
F B:2FA307 0.0 20.2 1.0
C2 B:2FA307 1.3 20.8 1.0
N1 B:2FA307 2.2 20.3 1.0
N3 B:2FA307 2.3 20.1 1.0
O B:HOH402 3.3 31.6 1.0
C6 B:2FA307 3.5 21.3 1.0
C4 B:2FA307 3.5 20.9 1.0
CD2 B:PHE159 3.5 17.8 1.0
CG B:MET180 3.6 13.8 1.0
SD B:MET180 3.9 16.4 1.0
C5 B:2FA307 4.0 21.9 1.0
CA B:PHE159 4.0 18.0 1.0
CG1 B:VAL178 4.0 16.1 1.0
O B:GLU179 4.1 14.8 1.0
CE2 B:PHE159 4.2 17.7 1.0
CG B:PHE159 4.3 18.0 1.0
O B:HOH366 4.3 38.8 1.0
CB B:ALA156 4.3 12.4 1.0
CB B:PHE159 4.3 17.4 1.0
C B:GLU179 4.4 16.1 1.0
N6 B:2FA307 4.5 21.4 1.0
CA B:GLU179 4.6 16.1 1.0
O B:VAL178 4.6 15.8 1.0
N9 B:2FA307 4.8 21.6 1.0
C B:VAL178 4.8 16.0 1.0
N B:GLU179 4.8 15.6 1.0
O B:PHE159 4.8 17.6 1.0
N B:PHE159 4.8 17.2 1.0
C B:PHE159 4.9 19.2 1.0
O B:LEU158 5.0 16.4 1.0

Fluorine binding site 3 out of 3 in 1pk9

Go back to Fluorine Binding Sites List in 1pk9
Fluorine binding site 3 out of 3 in the Crystal Structure of E. Coli Purine Nucleoside Phosphorylase Complexed with 2-Fluoroadenosine and Sulfate/Phosphate


Mono view


Stereo pair view

A full contact list of Fluorine with other atoms in the F binding site number 3 of Crystal Structure of E. Coli Purine Nucleoside Phosphorylase Complexed with 2-Fluoroadenosine and Sulfate/Phosphate within 5.0Å range:
probe atom residue distance (Å) B Occ
C:F308

b:20.4
occ:1.00
F C:2FA308 0.0 20.4 1.0
C2 C:2FA308 1.3 18.8 1.0
N1 C:2FA308 2.2 17.6 1.0
N3 C:2FA308 2.3 16.9 1.0
CG C:MET180 3.3 13.6 1.0
O C:HOH326 3.4 27.6 1.0
C6 C:2FA308 3.5 17.9 1.0
C4 C:2FA308 3.5 17.4 1.0
SD C:MET180 3.7 17.4 1.0
CD2 C:PHE159 3.8 16.6 1.0
CG1 C:VAL178 3.8 15.2 1.0
CA C:PHE159 3.9 15.4 1.0
O C:GLU179 3.9 15.5 1.0
C5 C:2FA308 4.0 17.7 1.0
CB C:ALA156 4.1 13.9 1.0
C C:GLU179 4.2 15.7 1.0
O C:HOH333 4.3 25.1 1.0
CB C:PHE159 4.3 15.7 1.0
CG C:PHE159 4.3 16.8 1.0
O C:VAL178 4.4 16.0 1.0
CA C:GLU179 4.4 16.1 1.0
N6 C:2FA308 4.5 16.1 1.0
CE2 C:PHE159 4.6 18.1 1.0
C C:VAL178 4.6 16.7 1.0
N C:PHE159 4.6 15.9 1.0
N C:GLU179 4.6 16.3 1.0
O C:PHE159 4.7 16.3 1.0
N9 C:2FA308 4.8 18.0 1.0
CB C:MET180 4.8 13.2 1.0
O C:LEU158 4.8 16.7 1.0
C C:PHE159 4.8 16.3 1.0
CB C:VAL178 4.8 16.4 1.0
N C:MET180 4.9 14.4 1.0
C2' C:2FA308 5.0 16.3 1.0

Reference:

E.M.Bennett, C.Li, P.W.Allan, W.B.Parker, S.E.Ealick. Structural Basis For Substrate Specificity of Escherichia Coli Purine Nucleoside Phosphorylase. J.Biol.Chem. V. 278 47110 2003.
ISSN: ISSN 0021-9258
PubMed: 12937174
DOI: 10.1074/JBC.M304622200
Page generated: Wed Jul 31 12:20:10 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy