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Structure of IDP00051

Crystal structure of the Bacillus anthracis phenazine biosynthesis protein, PhzF family

Edit deposit information
CSGID target
IDP00051 
PDB Id
3EDN (NCBI MMDB
Authors
S.M.Anderson,J.S.Brunzelle,O.Onopriyenko,A.Savchenko,W.F.Anderson,Center For Structural Genomics Of Infectious Diseases (Csgid) 
Responsible person
Spencer Anderson 
Responsible lab
Northwestern University 
Deposition Date
Sep 03, 2008 
Release Date
Oct 07, 2008 

Annotation

Description
A variety of bacteria produce natural phenazine antibiotics. In addition to helping the organisms compete with other bacteria, these heterocyclic nitrogen containing compounds can also act as virulence factors. A well-studied example is pyocyanin, a phenazine produced by Pseudomonas aeruginosa that has been implicated in its ability to infect the lungs of cystic fibrosis patients. This is the 1.5Å resolution crystal structure of PhzF from Bacillus anthrasis, an essential isomerase in the phenazine synthesis pathway. The molecule acts as a dimer and is believed to use a conserved glutamic acid to remove a proton from C3 of the substrate trans-2,3-dihydro-3-hydroxyanthranilic acid. Other structural examples of PhzF have previously been solved from organisms such as Pseudomonas fluorescens (1T6K) and Enterococcus faecalis (1S7J). 
Functional assignment
 

Ligands

Ligand code Name Ligand type
SO4
SIN succinic acid
MG
MSE modified residue

Structure information

Unit cell parameters

Space Group
P 21 21 21  
Unit Cell

a=60.09Å, b=65.64Å, c=150.17Å
α=90.00, β=90.00, γ=90.00 
Solvent content
43.95  
Matthews coefficient
2.19  

Refinement

Data for the highest resolution shell is in parentheses.
Resolution range
38.18-1.50Å (1.54-1.50Å)  
Rall(%)
18.2 
Rwork(%)
18.0 (24.2) 
Rfree(%)
21.9 (26.5) 
Num. observed reflections
93368 (5942) 
Num. Rfree reflections
4668 (269) 
Completeness(%)
97.7 (85.3) 

Model parameters

Num Atoms
5825  
Num Waters
865  
Num Hetatoms
0  
Model mean isotropic B factor
18.208Å2  
RMSD bond length
0.009Å  
RMSD bond angle
1.195°  
Filename uploaded
IDP51_3EDN.pdb (uploaded on Oct 27, 2008 12:53 PM)  
Inserted
Oct 27, 2008