5JFF

E. coli EcFicT mutant G55R in complex with EcFicA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.194 
  • R-Value Work: 0.162 

wwPDB Validation 3D Report Full Report


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Literature

Crystal Structure of the Escherichia coli Fic Toxin-Like Protein in Complex with Its Cognate Antitoxin.

Stanger, F.V.Harms, A.Dehio, C.Schirmer, T.

(2016) Plos One 11: e0163654-e0163654

  • DOI: 10.1371/journal.pone.0163654
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • FIC domain proteins mediate post-translational modifications of target proteins, which typically results in their inactivation. Depending on the conservation of crucial active site residues, the FIC fold serves as structural scaffold for various enzy ...

    FIC domain proteins mediate post-translational modifications of target proteins, which typically results in their inactivation. Depending on the conservation of crucial active site residues, the FIC fold serves as structural scaffold for various enzymatic activities, mostly target adenylylation. The founding member of the vast Fic protein family, EcFicT, was identified in Escherichia coli some time ago. The G55R point mutant of EcFicT displays the "filamentation induced by cAMP" (Fic) phenotype at high 3',5'-cyclic adenosine monophosphate (cAMP) concentrations and elevated temperature, but the underlying molecular mechanism and any putative biochemical activity of EcFicT have remained unknown. EcFicT belongs to class I Fic toxin proteins that are encoded together with a small inhibitory protein (antitoxin), named EcFicA in E. coli. Here, we report the crystal structures of two mutant EcFicT/EcFicA complexes (EcFicTG55RA and EcFicTAE28G) both showing close resemblance with the structure of the AMP-transferase VbhT from Bartonella schoenbuchensis in complex with its cognate antitoxin VbhA. However, crucial differences in the active site of EcFicT compared to VbhT and other AMP-transferases rationalize the lack of evidence for adenylylation activity. Comprehensive bioinformatic analysis suggests that EcFicT has evolved from canonical AMP-transferases and has acquired a conserved binding site for a yet to be discovered novel substrate. The G55R mutation has no effect on structure or thermal stability of EcFicT, such that the molecular basis for its associated Fic phenotype remains elusive. We anticipate that this structure will inspire further bioinformatic and experimental analyses in order to characterize the enzymatic activity of EcFicT and help revealing its physiological role.


    Organizational Affiliation

    Focal Area Structural Biology and Biophysics, Biozentrum, University of Basel, Basel, Switzerland.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Probable adenosine monophosphate-protein transferase fic
A, C
224Escherichia coli (strain K12)Mutation(s): 1 
Gene Names: fic
EC: 2.7.7.n1
Find proteins for P20605 (Escherichia coli (strain K12))
Go to UniProtKB:  P20605
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Uncharacterized protein YhfG
B, D
68Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: yhfG
Find proteins for P0ADX5 (Escherichia coli (strain K12))
Go to UniProtKB:  P0ADX5
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CL
Query on CL

Download SDF File 
Download CCD File 
A, B, C, D
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
144
Query on 144

Download SDF File 
Download CCD File 
A
TRIS-HYDROXYMETHYL-METHYL-AMMONIUM
C4 H12 N O3
DRDCQJADRSJFFD-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.194 
  • R-Value Work: 0.162 
  • Space Group: P 65
Unit Cell:
Length (Å)Angle (°)
a = 104.690α = 90.00
b = 104.690β = 90.00
c = 110.520γ = 120.00
Software Package:
Software NamePurpose
XDSdata reduction
XSCALEdata scaling
PDB_EXTRACTdata extraction
PHASERphasing
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-10-05
    Type: Initial release