7LU6

Crystal structure of the mouse Kirrel3 D1 homodimer


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.195 
  • R-Value Work: 0.160 
  • R-Value Observed: 0.165 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Molecular and structural basis of olfactory sensory neuron axon coalescence by Kirrel receptors.

Wang, J.Vaddadi, N.Pak, J.S.Park, Y.Quilez, S.Roman, C.A.Dumontier, E.Thornton, J.W.Cloutier, J.F.Ozkan, E.

(2021) Cell Rep 37: 109940-109940

  • DOI: https://doi.org/10.1016/j.celrep.2021.109940
  • Primary Citation of Related Structures:  
    7LTW, 7LU6

  • PubMed Abstract: 

    Projections from sensory neurons of olfactory systems coalesce into glomeruli in the brain. The Kirrel receptors are believed to homodimerize via their ectodomains and help separate sensory neuron axons into Kirrel2- or Kirrel3-expressing glomeruli. Here, we present the crystal structures of homodimeric Kirrel receptors and show that the closely related Kirrel2 and Kirrel3 have evolved specific sets of polar and hydrophobic interactions, respectively, disallowing heterodimerization while preserving homodimerization, likely resulting in proper segregation and coalescence of Kirrel-expressing axons into glomeruli. We show that the dimerization interface at the N-terminal immunoglobulin (IG) domains is necessary and sufficient to create homodimers and fail to find evidence for a secondary interaction site in Kirrel ectodomains. Furthermore, we show that abolishing dimerization of Kirrel3 in vivo leads to improper formation of glomeruli in the mouse accessory olfactory bulb as observed in Kirrel3 -/- animals. Our results provide evidence for Kirrel3 homodimerization controlling axonal coalescence.


  • Organizational Affiliation

    Department of Biochemistry and Molecular Biology, The University of Chicago, Chicago, IL 60637, USA; Grossman Institute for Neuroscience, Quantitative Biology and Human Behavior, The University of Chicago, Chicago, IL 60637, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Kin of IRRE-like protein 3
A, B, C, D, E
A, B, C, D, E, F, G, H
109Mus musculusMutation(s): 0 
Gene Names: Kirrel3Kiaa1867Neph2
UniProt
Find proteins for Q8BR86 (Mus musculus)
Explore Q8BR86 
Go to UniProtKB:  Q8BR86
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8BR86
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.195 
  • R-Value Work: 0.160 
  • R-Value Observed: 0.165 
  • Space Group: P 63
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 63.241α = 90
b = 63.241β = 90
c = 347.809γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
Cootmodel building
PHASERphasing
HKL-2000data reduction

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)United StatesR01NS097161

Revision History  (Full details and data files)

  • Version 1.0: 2021-11-24
    Type: Initial release
  • Version 1.1: 2023-10-18
    Changes: Data collection, Refinement description