2BPD | pdb_00002bpd

STRUCTURE OF MURINE DECTIN-1

• PDB DOI: https://doi.org/10.2210/pdb2BPD/pdb

• Classification: RECEPTOR
• Organism(s): Mus musculus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2005-04-19 Released: 2006-08-30 
• Deposition Author(s): Brown, J., O'Callaghan, C.A., Marshall, A.S.J., Gilbert, R.J.C., Siebold, C., Gordon, S., Brown, G.D., Jones, E.Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 
  0.270 (Depositor), 0.179 (DCC) 
• R-Value Work: 
  0.214 (Depositor), 0.215 (DCC) 
• R-Value Observed: 
  0.216 (Depositor) 

Starting Models: experimental

Literature

Structure of the Fungal Beta-Glucan-Binding Immune Receptor Dectin-1: Implications for Function.

Brown, J., O'Callaghan, C.A., Marshall, A.S.J., Gilbert, R.J.C., Siebold, C., Gordon, S., Brown, G.D., Jones, E.Y.

(2007) Protein Sci 16: 1042

• PubMed: 17473009 
• DOI: https://doi.org/10.1110/ps.072791207
• Primary Citation Related Structures: 
  2BPD, 2BPE, 2BPH, 2CL8


• PubMed Abstract: 
  

  The murine molecule dectin-1 (known as the beta-glucan receptor in humans) is an immune cell surface receptor implicated in the immunological defense against fungal pathogens. Sequence analysis has indicated that the dectin-1 extracellular domain is a C-type lectin-like domain, and functional studies have established that it binds fungal beta-glucans. We report several dectin-1 crystal structures, including a high-resolution structure and a 2.8 angstroms resolution structure in which a short soaked natural beta-glucan is trapped in the crystal lattice. In vitro characterization of dectin-1 in the presence of its natural ligand indicates higher-order complex formation between dectin-1 and beta-glucans. These combined structural and biophysical data considerably extend the current knowledge of dectin-1 structure and function, and suggest potential mechanisms of defense against fungal pathogens.

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Organizational Affiliation: 
• CR-UK Receptor Structure Research Group, Division of Structural Biology, Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, OX3 7BN, United Kingdom.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 32.66 kDa 
• Atom Count: 2,545 
• Modeled Residue Count: 256 
• Deposited Residue Count: 284 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DECTIN-1	A, B	142	Mus musculus	Mutation(s): 0
UniProt
Find proteins for Q6QLQ4 (Mus musculus) Explore Q6QLQ4  Go to UniProtKB:  Q6QLQ4

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free:  0.270 (Depositor), 0.179 (DCC) 
• R-Value Work:  0.214 (Depositor), 0.215 (DCC) 
• R-Value Observed: 0.216 (Depositor) 

Space Group: P 3₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.104	α = 90
b = 57.104	β = 90
c = 73.422	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
CaspR	phasing
AMoRE	phasing
REFMAC	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-08-30 
Deposition Author(s): Brown, J., O'Callaghan, C.A., Marshall, A.S.J., Gilbert, R.J.C., Siebold, C., Gordon, S., Brown, G.D., Jones, E.Y.

Revision History  

• Version 1.0: 2006-08-30
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2017-07-12
  Changes: Refinement description
• Version 1.3: 2019-04-03
  Changes: Data collection, Source and taxonomy
• Version 1.4: 2020-03-25
  Changes: Derived calculations, Other
• Version 1.5: 2023-12-13
  Changes: Data collection, Database references, Refinement description
• Version 1.6: 2024-11-13
  Changes: Structure summary