5B1R

Crystal structure of mouse CD72a CTLD


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.2 Å
  • R-Value Free: 0.148 
  • R-Value Work: 0.128 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

CD72 negatively regulates B lymphocyte responses to the lupus-related endogenous toll-like receptor 7 ligand Sm/RNP

Akatsu, C.Shinagawa, K.Numoto, N.Liu, Z.Ucar, A.K.Aslam, M.Phoon, S.Adachi, T.Furukawa, K.Ito, N.Tsubata, T.

(2016) J.Exp.Med. 213: 2691-2706

  • DOI: 10.1084/jem.20160560

  • PubMed Abstract: 
  • Toll-like receptor 7 (TLR7) plays an essential role in development of systemic lupus erythematosus by co-stimulating B cells reactive to the endogenous TLR7 ligand Sm/ribonucleoprotein (RNP), a crucial lupus self-antigen. However, how the TLR7-mediat ...

    Toll-like receptor 7 (TLR7) plays an essential role in development of systemic lupus erythematosus by co-stimulating B cells reactive to the endogenous TLR7 ligand Sm/ribonucleoprotein (RNP), a crucial lupus self-antigen. However, how the TLR7-mediated autoimmune response is regulated is not yet known. In this study, we demonstrate that CD72, an inhibitory B cell co-receptor known to prevent development of lupus, recognizes Sm/RNP at the extracellular C-type lectin-like domain (CTLD) and specifically inhibits B cell response to Sm/RNP. Moreover, the CTLD of CD72 c , a lupus-susceptible allele, binds to Sm/RNP less strongly than that of lupus-resistant CD72 a Reduced binding of CD72 c is supported by x-ray crystallographic analysis that reveals a considerable alteration in charge at the putative ligand-binding site. Thus, CD72 appears to specifically inhibit B cell response to the endogenous TLR7 ligand Sm/RNP through CTLD-mediated recognition of Sm/RNP, thereby preventing production of anti-Sm/RNP antibody crucial for development of lupus.


    Organizational Affiliation

    Department of Structural Biology, Medical Research Institute, Tokyo Medical and Dental University, Bunkyo, Tokyo 113-8510, Japan tsubata.imm@mri.tmd.ac.jp ito.str@tmd.ac.jp.,Department of Immunology, Medical Research Institute, Tokyo Medical and Dental University, Bunkyo, Tokyo 113-8510, Japan tsubata.imm@mri.tmd.ac.jp ito.str@tmd.ac.jp.,Department of Structural Biology, Medical Research Institute, Tokyo Medical and Dental University, Bunkyo, Tokyo 113-8510, Japan.,Emergency Department, The First Affiliated Hospital of China Medical University, Shenyang, Liaoning Province 110001, China.,Department of Immunology, Medical Research Institute, Tokyo Medical and Dental University, Bunkyo, Tokyo 113-8510, Japan.,Biomedical Research Institute, National Institute of Advanced Industrial Science and Technology, Tsukuba, Ibaraki 305-8566, Japan.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
B-cell differentiation antigen CD72
A
127Mus musculusMutation(s): 2 
Gene Names: Cd72 (Ly-32, Ly32, Lyb-2)
Find proteins for P21855 (Mus musculus)
Go to UniProtKB:  P21855
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ACT
Query on ACT

Download SDF File 
Download CCD File 
A
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
GOL
Query on GOL

Download SDF File 
Download CCD File 
A
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.2 Å
  • R-Value Free: 0.148 
  • R-Value Work: 0.128 
  • Space Group: P 61
Unit Cell:
Length (Å)Angle (°)
a = 65.472α = 90.00
b = 65.472β = 90.00
c = 61.220γ = 120.00
Software Package:
Software NamePurpose
PHENIXrefinement
Cootmodel building
PHASERphasing
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2016-10-19
    Type: Initial release
  • Version 1.1: 2016-11-23
    Type: Database references
  • Version 1.2: 2016-11-30
    Type: Database references