Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 193869.06 
• Atom Count: 11171 
• Residue Count: 1760 
• Unique protein chains: 2

3V47

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

• DOI: 10.2210/pdb3V47/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Salmonella dublin, Eptatretus burgeri, Danio rerio
• Expression System: Escherichia coli, Trichoplusia ni
• Mutation(s): 6 


• Deposited: 2011-12-14 Released: 2012-02-29 
• Deposition Author(s): Yoon, S.I., Hong, H., Wilson, I.A.

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Experimental Data Snapshot

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

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

• PubMed: 22344444 
• DOI: 10.1126/science.1215584
• Primary Citation of Related Structures:  
  3V44


• 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 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.

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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
Molecule	Chains	Sequence Length	Organism	Details
Toll-like receptor 5b and variable lymphocyte receptor B.61 chimeric protein	A, B	455	Eptatretus burgeri, Danio 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
Molecule	Chains	Sequence Length	Organism	Details
Flagellin	C, D	425	Salmonella dublin	Mutation(s): 0  Gene Names: fliC (fliC1)
Find proteins for Q06971 (Salmonella dublin) Go to UniProtKB:  Q06971

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
NAG	A, B	N-ACETYL-D-GLUCOSAMINE C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

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 = 58.406	α = 90.00
b = 181.495	β = 90.00
c = 186.367	γ = 90.00

Software Package:

Software Name	Purpose
HKL-2000	data reduction
PHASER	phasing
Blu-Ice	data collection
REFMAC	refinement
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-12-14 
• Released Date: 2012-02-29 
• Deposition Author(s): Yoon, S.I., Hong, H., Wilson, I.A.

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