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Structure of IDP90711

Crystal Structure of Dihydrodipicolinate Synthase from Campylobacter jejuni

Edit deposit information
CSGID target
IDP90711 
PDB Id
3M5V (NCBI MMDB
Authors
Y.Kim,M.Zhou,K.Kwon,W.F.Anderson,A.Joachimiak,Center For Structural Genomics Of Infectious Diseases (Csgid) 
Responsible person
Youngchang Kim 
Responsible lab
Argonne National Laboratory 
Deposition Date
Mar 13, 2010 
Release Date
Apr 28, 2010 

Annotation

Description
The structure of the apo-form of Dihydrodipicolinate Synthase from Campylobacter jejuni has the same structure without the lysine (Lys-166) with a Shiff base which is formed in the presence of pyruvate. The tetrameric structure is formed in 222 symmetry, where two monomers interact with C-terminal α-helices and the resulting two dimers (barrels) stacked head to head. 
Functional assignment
 

Ligands

Ligand code Name Ligand type
SO4
CL CHLORIDE ION
PEG
FMT
MSE modified residue

Structure information

Unit cell parameters

Space Group
P 21 21 21  
Unit Cell

a=72.36Å, b=86.03Å, c=198.95Å
α=90.00, β=90.00, γ=90.00 
Solvent content
47.07  
Matthews coefficient
2.32  

Refinement

Data for the highest resolution shell is in parentheses.
Resolution range
43.06-1.80Å (1.86-1.80Å)  
Rall(%)
14.7 
Rwork(%)
14.6 (18.4) 
Rfree(%)
18.1 (22.1) 
Num. observed reflections
121252 (11326) 
Num. Rfree reflections
6074 (594) 
Completeness(%)
99.8 (99.0) 

Model parameters

Num Atoms
10641  
Num Waters
1162  
Num Hetatoms
0  
Model mean isotropic B factor
25.720Å2  
RMSD bond length
0.010Å  
RMSD bond angle
1.220°  
RMSD dihedral angle
15.72°
 
Filename uploaded
dep1w.pdb (uploaded on Mar 15, 2010 8:12 PM)  
Inserted
Mar 15, 2010