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Structure of IDP04345

Crystal structure of Uridine Phosphorylase from Vibrio cholerae O1 biovar El Tor

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CSGID target
IDP04345 
PDB Id
3O6V (NCBI MMDB) 
Authors
N.Maltseva,Y.Kim,J.Hasseman,W.F.Anderson,A.Joachimiak,Center For Structural Genomics Of Infectious Diseases (Csgid) 
Responsible person
Natalia Maltseva 
Responsible lab
Argonne National Laboratory 
Deposition Date
Jul 29, 2010 
Release Date
Oct 13, 2010 

Annotation

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Description
Uridine phosphorylase is an enzyme which participates in pyrimidine metabolism and belongs to the family of glycosyltransferases. It catalyzes the reversible phosphorolysis of uridine with the formation of alpha-D-ribose-1-phosphate and uracil. Crystal structure of uridine phosphorylase from Vibrio cholerae O1 biovar El Tor was solved at 1.7 A resolution.  
Functional assignment
drug target; conserved gene; putative drug target function 

Ligands

Ligand code Name Ligand type
GOL glycerol
FMT formate

Structure information

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Unit cell parameters

Space Group
H 3  
Unit Cell

a=93.07Å, b=93.07Å, c=155.57Å
α=90.00, β=90.00, γ=120.00 
Solvent content
46.95  
Matthews coefficient
2.32  

Refinement

Data for the highest resolution shell is in parentheses.
Resolution range
35.78-1.70Å (1.76-1.70Å)  
Rall(%)
14.9 
Rwork(%)
14.8 (23.3) 
Rfree(%)
17.8 (26.1) 
Num. observed reflections
58058 (5410) 
Num. Rfree reflections
2949 (278) 
Completeness(%)
99.1 (97.0) 

Model parameters

Num Atoms
4575  
Num Waters
600  
Num Hetatoms
15  
Model mean isotropic B factor
23.580Å2  
RMSD bond length
0.008Å  
RMSD bond angle
1.155°  
RMSD dihedral angle
12.959°
 
Filename uploaded
dep.pdb (uploaded on Jul 29, 2010 12:24 PM)  
Inserted
Jul 29, 2010