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Structure of IDP00509

Putative solute-binding protein from Yersinia pestis.

Edit deposit information
CSGID target
IDP00509 
PDB Id
3RY3 (NCBI MMDB
Authors
J.Osipiuk,M.Zhou,K.Kwon,W.F.Anderson,A.Joachimiak,Center For Structural Genomics Of Infectious Diseases (Csgid) 
Responsible person
Jerzy Osipiuk 
Responsible lab
Argonne National Laboratory 
Deposition Date
May 10, 2011 
Release Date
May 18, 2011 

Annotation

Description
YPO2660 protein from Yersinia pestis is a putative solute-binding protein from the family of ATP-binding cassette transporters (ABC-transporters). ABC transporters are transmembrane proteins that utilize the energy of adenosine triphosphate (ATP) hydrolysis to transport a wide variety of substrates across extra- and intracellular membranes, including metabolic products, lipids and sterols, and drugs. The protein structure consists of two globular domains similar to the type 2 periplasmic binding proteins (PBP2) which bind their ligands in the cleft between domains and then interact with a cognate membrane transport complex. Bacterial ABC transporters are essential in cell viability, virulence, and pathogenicity. 
Functional assignment
 

Ligands

Ligand code Name Ligand type
MSE modified residue
175 3,5-dihydro-5-methylidene-4h-imidazol-4-on

Structure information

Unit cell parameters

Space Group
C 2 2 21  
Unit Cell

a=157.04Å, b=171.32Å, c=128.84Å
α=90.00, β=90.00, γ=90.00 
Solvent content
 
Matthews coefficient
 

Refinement

Data for the highest resolution shell is in parentheses.
Resolution range
43.20-2.43Å (2.49-2.43Å)  
Rall(%)
17.5 
Rwork(%)
17.3 (26.6) 
Rfree(%)
20.8 (29.1) 
Num. observed reflections
64459 (3556) 
Num. Rfree reflections
3287 (173) 
Completeness(%)
97.9 (74.0) 

Model parameters

Num Atoms
7888  
Num Waters
200  
Num Hetatoms
0  
Model mean isotropic B factor
36.590Å2  
RMSD bond length
0.020Å  
RMSD bond angle
1.634°  
Filename uploaded
idp00509.pdb (uploaded on May 10, 2011 6:45 PM)  
Inserted
May 10, 2011