Chlorine in PDB 5our: X-Ray Structure Uridine Phosphorylase From Vibrio Cholerae in Complex with 2,2'-Anhydrouridine at 1.34 A.

Enzymatic activity of X-Ray Structure Uridine Phosphorylase From Vibrio Cholerae in Complex with 2,2'-Anhydrouridine at 1.34 A.

All present enzymatic activity of X-Ray Structure Uridine Phosphorylase From Vibrio Cholerae in Complex with 2,2'-Anhydrouridine at 1.34 A.:
2.4.2.3;

Protein crystallography data

The structure of X-Ray Structure Uridine Phosphorylase From Vibrio Cholerae in Complex with 2,2'-Anhydrouridine at 1.34 A., PDB code: 5our was solved by I.I.Prokofev, V.V.Balaev, A.G.Gabdoulkhakov, C.Betzel, A.A.Lashkov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 44.60 / 1.35
Space group P 31
Cell size a, b, c (Å), α, β, γ (°) 93.245, 93.245, 152.928, 90.00, 90.00, 120.00
R / Rfree (%) 13.1 / 17.1

Other elements in 5our:

The structure of X-Ray Structure Uridine Phosphorylase From Vibrio Cholerae in Complex with 2,2'-Anhydrouridine at 1.34 A. also contains other interesting chemical elements:

Magnesium (Mg) 1 atom
Sodium (Na) 3 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the X-Ray Structure Uridine Phosphorylase From Vibrio Cholerae in Complex with 2,2'-Anhydrouridine at 1.34 A. (pdb code 5our). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the X-Ray Structure Uridine Phosphorylase From Vibrio Cholerae in Complex with 2,2'-Anhydrouridine at 1.34 A., PDB code: 5our:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in 5our

Go back to Chlorine Binding Sites List in 5our
Chlorine binding site 1 out of 4 in the X-Ray Structure Uridine Phosphorylase From Vibrio Cholerae in Complex with 2,2'-Anhydrouridine at 1.34 A.


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of X-Ray Structure Uridine Phosphorylase From Vibrio Cholerae in Complex with 2,2'-Anhydrouridine at 1.34 A. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl301

b:59.1
occ:1.00
O B:HOH440 3.0 38.0 1.0
N B:ASN39 3.0 13.3 1.0
O B:HOH689 3.2 54.0 1.0
CA B:ASN39 3.8 13.6 1.0
OD1 B:ASN39 3.9 22.4 1.0
C B:ASP38 4.0 14.1 1.0
CA B:ASP38 4.0 13.9 1.0
CD B:PRO40 4.1 12.1 1.0
CG B:ASN39 4.4 19.6 1.0
CB B:ASP38 4.6 15.6 1.0
O B:MET37 4.6 14.9 1.0
CB B:ASN39 4.7 15.9 1.0
OD1 B:ASP38 4.7 22.8 1.0
O B:HOH549 4.7 26.2 1.0
O B:HOH484 4.8 24.3 1.0
C B:ASN39 4.9 11.8 1.0
N B:PRO40 4.9 10.8 1.0
O B:HOH709 4.9 52.7 1.0

Chlorine binding site 2 out of 4 in 5our

Go back to Chlorine Binding Sites List in 5our
Chlorine binding site 2 out of 4 in the X-Ray Structure Uridine Phosphorylase From Vibrio Cholerae in Complex with 2,2'-Anhydrouridine at 1.34 A.


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of X-Ray Structure Uridine Phosphorylase From Vibrio Cholerae in Complex with 2,2'-Anhydrouridine at 1.34 A. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cl305

b:24.2
occ:1.00
O B:HOH536 2.8 10.9 1.0
N B:PHE133 2.9 7.4 1.0
O B:HOH633 3.2 43.7 1.0
CB B:PHE133 3.5 8.6 1.0
CA B:ASP132 3.7 7.6 1.0
O C:HOH635 3.7 53.0 1.0
O C:MET152 3.7 12.7 1.0
C B:ASP132 3.8 7.4 1.0
OD1 B:ASP132 3.8 12.7 1.0
CA B:PHE133 3.8 7.6 1.0
CG2 C:THR110 3.9 9.4 1.0
O B:HOH435 3.9 32.4 1.0
CB C:MET152 4.0 10.4 1.0
C C:MET152 4.1 9.6 1.0
O B:PRO131 4.2 7.4 1.0
O B:HOH696 4.2 23.9 1.0
CG B:ASP132 4.2 11.3 1.0
OG1 C:THR110 4.2 9.9 1.0
CB B:ASP132 4.5 9.0 1.0
CB C:THR110 4.5 8.9 1.0
CA C:GLY153 4.5 7.8 1.0
N C:GLY153 4.5 8.1 1.0
O B:HOH580 4.7 10.4 1.0
N B:ASP132 4.7 6.7 1.0
CA C:MET152 4.8 8.3 1.0
O C:HOH557 4.8 25.6 1.0
C B:PRO131 4.9 5.9 1.0
CG B:PHE133 4.9 9.5 1.0
OD2 B:ASP132 4.9 11.9 1.0
C B:PHE133 4.9 8.3 1.0
N B:ASP134 5.0 8.4 1.0
O B:ASP132 5.0 7.6 1.0
O B:HOH523 5.0 25.4 1.0

Chlorine binding site 3 out of 4 in 5our

Go back to Chlorine Binding Sites List in 5our
Chlorine binding site 3 out of 4 in the X-Ray Structure Uridine Phosphorylase From Vibrio Cholerae in Complex with 2,2'-Anhydrouridine at 1.34 A.


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of X-Ray Structure Uridine Phosphorylase From Vibrio Cholerae in Complex with 2,2'-Anhydrouridine at 1.34 A. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cl301

b:26.9
occ:1.00
O B:HOH564 2.7 12.4 1.0
O B:HOH653 2.8 48.1 1.0
N C:PHE133 2.9 6.3 1.0
CB C:PHE133 3.5 8.6 1.0
CA C:ASP132 3.7 7.3 1.0
CA C:PHE133 3.8 7.8 1.0
C C:ASP132 3.8 6.7 1.0
OD1 C:ASP132 3.9 12.6 1.0
CG2 B:THR110 3.9 10.0 1.0
O B:MET152 3.9 9.8 1.0
O C:HOH443 4.1 38.5 1.0
OG1 B:THR110 4.2 9.2 1.0
O C:PRO131 4.2 7.6 1.0
CB B:MET152 4.2 9.3 1.0
O C:HOH681 4.2 31.6 1.0
C B:MET152 4.3 8.3 1.0
CG C:ASP132 4.3 9.8 1.0
CA B:GLY153 4.5 8.1 1.0
CB B:THR110 4.5 9.2 1.0
CB C:ASP132 4.6 8.9 1.0
N B:GLY153 4.6 7.4 1.0
O B:HOH519 4.7 28.9 1.0
O C:HOH590 4.8 11.3 1.0
N C:ASP132 4.8 7.0 1.0
CG C:PHE133 4.8 9.6 1.0
C C:PHE133 5.0 8.6 1.0
C C:PRO131 5.0 6.9 1.0
CA B:MET152 5.0 8.5 1.0

Chlorine binding site 4 out of 4 in 5our

Go back to Chlorine Binding Sites List in 5our
Chlorine binding site 4 out of 4 in the X-Ray Structure Uridine Phosphorylase From Vibrio Cholerae in Complex with 2,2'-Anhydrouridine at 1.34 A.


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of X-Ray Structure Uridine Phosphorylase From Vibrio Cholerae in Complex with 2,2'-Anhydrouridine at 1.34 A. within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Cl306

b:25.5
occ:1.00
O F:HOH546 2.8 11.4 1.0
N F:PHE133 2.9 7.8 1.0
O A:HOH655 3.1 31.0 0.4
O A:HOH655 3.3 37.0 0.6
CB F:PHE133 3.5 8.0 1.0
CA F:ASP132 3.7 7.9 1.0
CA F:PHE133 3.8 7.3 1.0
C F:ASP132 3.8 7.5 1.0
OD1 F:ASP132 3.8 11.6 1.0
CG2 A:THR110 3.8 9.3 1.0
O A:MET152 3.9 11.7 1.0
O F:HOH439 3.9 33.3 1.0
CB A:MET152 4.1 9.6 1.0
O F:HOH693 4.1 29.2 1.0
C A:MET152 4.2 8.6 1.0
OG1 A:THR110 4.2 9.2 1.0
O F:PRO131 4.2 7.2 1.0
CG F:ASP132 4.3 10.3 1.0
CB A:THR110 4.4 8.1 1.0
CA A:GLY153 4.5 8.0 1.0
CB F:ASP132 4.5 9.2 1.0
N A:GLY153 4.5 7.8 1.0
O F:HOH577 4.7 10.4 1.0
O A:HOH548 4.8 27.0 1.0
CA A:MET152 4.8 8.5 1.0
N F:ASP132 4.8 7.3 1.0
CG F:PHE133 4.9 8.9 1.0
C F:PRO131 5.0 7.0 1.0
OD2 F:ASP132 5.0 10.7 1.0
C F:PHE133 5.0 7.6 1.0
N F:ASP134 5.0 9.3 1.0

Reference:

I.I.Prokofev, V.V.Balaev, A.G.Gabdoulkhakov, C.Betzel, A.A.Lashkov. X-Ray Structure Uridine Phosphorylase From Vibrio Cholerae in Complex with 2,2'-Anhydrouridine at 1.34 A. To Be Published.
Page generated: Sat Dec 12 12:14:11 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy