Biological Assembly 1  

 3D View: Structure | Electron Density

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 95.50 kDa 
• Atom Count: 3916 
• Residue Count: 502 
• Unique protein chains: 1

4J40

Crystal structure of the dual-domain GGDEF-EAL module of FimX from Pseudomonas aeruginosa

• DOI: 10.2210/pdb4J40/pdb
• Entry: 4J40 supersedes: 3HVB

• Classification: HYDROLASE
• Organism(s): Pseudomonas aeruginosa PAO1
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2013-02-06 Released: 2013-02-20 
• Deposition Author(s): Navarro, M.V., De, N., Bae, N., Wang, Q., Sondermann, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.99 Å
• R-Value Free: 0.232 
• R-Value Work: 0.208 
• R-Value Observed: 0.210 

Literature

Structural analysis of the GGDEF-EAL domain-containing c-di-GMP receptor FimX.

Navarro, M.V., De, N., Bae, N., Wang, Q., Sondermann, H.

(2009) Structure 17: 1104-1116

• PubMed: 19679088 
• DOI: 10.1016/j.str.2009.06.010
• Structures With Same Primary Citation


• PubMed Abstract: 
  

Bacterial pathogenesis involves social behavior including biofilm formation and swarming, processes that are regulated by the bacterially unique second messenger cyclic di-GMP (c-di-GMP). Diguanylate cyclases containing GGDEF and phosphodiesterases containing EAL domains have been identified as the enzymes controlling cellular c-di-GMP levels, yet less is known regarding signal transmission and the targets of c-di-GMP. FimX, a protein from Pseudomonas aeruginosa that governs twitching motility, belongs to a large subfamily containing both GGDEF and EAL domains. Biochemical and structural analyses reveals its function as a high-affinity receptor for c-di-GMP. A model for full-length FimX was generated combining solution scattering data and crystal structures of the degenerate GGDEF and EAL domains. Although FimX forms a dimer in solution via the N-terminal domains, a crystallographic EAL domain dimer suggests modes for the regulation of FimX by c-di-GMP binding. The results provide the structural basis for c-di-GMP sensing via degenerate phosphodiesterases.

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Organizational Affiliation: 

Department of Molecular Medicine, College of Veterinary Medicine, Cornell University, Ithaca, NY 14853, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
FimX	A, B	437	Pseudomonas aeruginosa PAO1	Mutation(s): 0  Gene Names: fimX, PA4959 EC: 3.1.4.52
Find proteins for Q9HUK6 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Go to UniProtKB:  Q9HUK6

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.99 Å
• R-Value Free: 0.232 
• R-Value Work: 0.208 
• R-Value Observed: 0.210 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 106.251	α = 90
b = 106.251	β = 90
c = 193.351	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
SOLVE	phasing
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2013-02-06 
• Released Date: 2013-02-20 
Deposition Author(s): Navarro, M.V., De, N., Bae, N., Wang, Q., Sondermann, H.
• This entry supersedes: 3HVB

Revision History 

• Version 1.0: 2013-02-20
  Type: Initial release