3V47

Crystal structure of the N-terminal fragment of zebrafish TLR5 in complex with Salmonella flagellin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.47 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.221 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

Structural basis of TLR5-flagellin recognition and signaling.

Yoon, S.I.Kurnasov, O.Natarajan, V.Hong, M.Gudkov, A.V.Osterman, A.L.Wilson, I.A.

(2012) Science 335: 859-864

  • DOI: 10.1126/science.1215584
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Toll-like receptor 5 (TLR5) binding to bacterial flagellin activates signaling through the transcription factor NF-κB and triggers an innate immune response to the invading pathogen. To elucidate the structural basis and mechanistic implications of T ...

    Toll-like receptor 5 (TLR5) binding to bacterial flagellin activates signaling through the transcription factor NF-κB and triggers an innate immune response to the invading pathogen. To elucidate the structural basis and mechanistic implications of TLR5-flagellin recognition, we determined the crystal structure of zebrafish TLR5 (as a variable lymphocyte receptor hybrid protein) in complex with the D1/D2/D3 fragment of Salmonella flagellin, FliC, at 2.47 angstrom resolution. TLR5 interacts primarily with the three helices of the FliC D1 domain using its lateral side. Two TLR5-FliC 1:1 heterodimers assemble into a 2:2 tail-to-tail signaling complex that is stabilized by quaternary contacts of the FliC D1 domain with the convex surface of the opposing TLR5. The proposed signaling mechanism is supported by structure-guided mutagenesis and deletion analyses on CBLB502, a therapeutic protein derived from FliC.


    Organizational Affiliation

    Department of Molecular Biology, The Scripps Research Institute, La Jolla, CA 92037, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Toll-like receptor 5b and variable lymphocyte receptor B.61 chimeric protein
A, B
455Eptatretus burgeriDanio rerio
This entity is chimeric
Mutation(s): 6 
Gene Names: VLRB, tlr5b
Find proteins for Q4G1L2 (Eptatretus burgeri)
Go to UniProtKB:  Q4G1L2
Find proteins for B3DIN1 (Danio rerio)
Go to UniProtKB:  B3DIN1
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Flagellin
C, D
425Salmonella dublinMutation(s): 0 
Gene Names: fliC (fliC1)
Find proteins for Q06971 (Salmonella dublin)
Go to UniProtKB:  Q06971
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download SDF File 
Download CCD File 
A, B
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.47 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.221 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 58.406α = 90.00
b = 181.495β = 90.00
c = 186.367γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
PHASERphasing
Blu-Icedata collection
REFMACrefinement
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-02-29
    Type: Initial release
  • Version 1.1: 2012-03-07
    Type: Structure summary
  • Version 1.2: 2017-08-02
    Type: Refinement description, Source and taxonomy
  • Version 1.3: 2017-11-08
    Type: Refinement description
  • Version 1.4: 2018-02-14
    Type: Structure summary