7WM4

Cryo-EM structure of tetrameric TLR3 in complex with dsRNA (90 bp)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

TLR3 forms a laterally aligned multimeric complex along double-stranded RNA for efficient signal transduction.

Sakaniwa, K.Fujimura, A.Shibata, T.Shigematsu, H.Ekimoto, T.Yamamoto, M.Ikeguchi, M.Miyake, K.Ohto, U.Shimizu, T.

(2023) Nat Commun 14: 164-164

  • DOI: https://doi.org/10.1038/s41467-023-35844-2
  • Primary Citation of Related Structures:  
    7WM4

  • PubMed Abstract: 

    Toll-like receptor 3 (TLR3) is a member of the TLR family, which plays an important role in the innate immune system and is responsible for recognizing viral double-stranded RNA (dsRNA). Previous biochemical and structural studies have revealed that a minimum length of approximately 40-50 base pairs of dsRNA is necessary for TLR3 binding and dimerization. However, efficient TLR3 activation requires longer dsRNA and the molecular mechanism underlying its dsRNA length-dependent activation remains unknown. Here, we report cryo-electron microscopy analyses of TLR3 complexed with longer dsRNA. TLR3 dimers laterally form a higher multimeric complex along dsRNA, providing the basis for cooperative binding and efficient signal transduction.


  • Organizational Affiliation

    Graduate School of Pharmaceutical Sciences, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-0033, Japan.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Toll-like receptor 3A [auth C],
B [auth D],
C [auth E],
D [auth F]
680Mus musculusMutation(s): 0 
Gene Names: Tlr3
UniProt
Find proteins for Q99MB1 (Mus musculus)
Explore Q99MB1 
Go to UniProtKB:  Q99MB1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ99MB1
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains LengthOrganismImage
RNA (81-MER)E [auth A]81synthetic construct
Sequence Annotations
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  • Reference Sequence
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Entity ID: 3
MoleculeChains LengthOrganismImage
RNA (81-MER)F [auth B]81synthetic construct
Sequence Annotations
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 4
MoleculeChains Length2D Diagram Glycosylation3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
AA [auth a],
EA [auth e],
FA [auth f],
G,
GA [auth g],
AA [auth a],
EA [auth e],
FA [auth f],
G,
GA [auth g],
K,
L,
M,
Q,
R,
S,
U,
Y,
Z
3N-Glycosylation
Glycosylation Resources
GlyTouCan:  G15407YE
GlyCosmos:  G15407YE
GlyGen:  G15407YE
Entity ID: 5
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
BA [auth b],
CA [auth c],
DA [auth d],
H,
HA [auth h],
BA [auth b],
CA [auth c],
DA [auth d],
H,
HA [auth h],
I,
J,
N,
O,
P,
T,
V,
W,
X
2N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download Ideal Coordinates CCD File 
IA [auth C]
JA [auth C]
KA [auth D]
LA [auth D]
MA [auth D]
IA [auth C],
JA [auth C],
KA [auth D],
LA [auth D],
MA [auth D],
NA [auth D],
OA [auth E],
PA [auth E],
QA [auth F],
RA [auth F],
SA [auth F],
TA [auth F]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Ministry of Education, Culture, Sports, Science and Technology (Japan)Japan19J21830
Ministry of Education, Culture, Sports, Science and Technology (Japan)Japan19H03164
Ministry of Education, Culture, Sports, Science and Technology (Japan)Japan19H00976

Revision History  (Full details and data files)

  • Version 1.0: 2023-01-25
    Type: Initial release
  • Version 1.1: 2023-08-30
    Changes: Data collection, Database references