2R16

Crystal Structure of bovine neurexin 1 alpha LNS/LG domain 4 (with no splice insert)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.04 Å
  • R-Value Free: 0.165 
  • R-Value Work: 0.146 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Regulation of Neurexin 1beta Tertiary Structure and Ligand Binding through Alternative Splicing

Shen, K.C.Kuczynska, D.A.Wu, I.J.Murray, B.H.Sheckler, L.R.Rudenko, G.

(2008) Structure 16: 422-431

  • DOI: 10.1016/j.str.2008.01.005
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Neurexins and neuroligins play an essential role in synapse function, and their alterations are linked to autistic spectrum disorder. Interactions between neurexins and neuroligins regulate inhibitory and excitatory synaptogenesis in vitro through a ...

    Neurexins and neuroligins play an essential role in synapse function, and their alterations are linked to autistic spectrum disorder. Interactions between neurexins and neuroligins regulate inhibitory and excitatory synaptogenesis in vitro through a "splice-insert signaling code." In particular, neurexin 1beta carrying an alternative splice insert at site SS#4 interacts with neuroligin 2 (found predominantly at inhibitory synapses) but much less so with other neuroligins (those carrying an insert at site B and prevalent at excitatory synapses). The structure of neurexin 1beta+SS#4 reveals dramatic rearrangements to the "hypervariable surface," the binding site for neuroligins. The splice insert protrudes as a long helix into space, triggers conversion of loop beta10-beta11 into a helix rearranging the binding site for neuroligins, and rearranges the Ca(2+)-binding site required for ligand binding, increasing its affinity. Our structures reveal the mechanism by which neurexin 1beta isoforms acquire neuroligin splice isoform selectivity.


    Organizational Affiliation

    Life Sciences Institute, University of Michigan, Ann Arbor, MI 48109, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Neurexin-1-alpha
A
182Bos taurusMutation(s): 0 
Gene Names: NRXN1
Find proteins for Q28146 (Bos taurus)
Go to Gene View: NRXN1
Go to UniProtKB:  Q28146
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CA
Query on CA

Download SDF File 
Download CCD File 
A
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.04 Å
  • R-Value Free: 0.165 
  • R-Value Work: 0.146 
  • Space Group: P 63
Unit Cell:
Length (Å)Angle (°)
a = 90.322α = 90.00
b = 90.322β = 90.00
c = 39.624γ = 120.00
Software Package:
Software NamePurpose
HKL-2000data scaling
MAR345data collection
CNSrefinement
REFMACrefinement
CNSphasing
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2007-08-22 
  • Released Date: 2008-03-25 
  • Deposition Author(s): Rudenko, G.

Revision History 

  • Version 1.0: 2008-03-25
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2017-10-25
    Type: Refinement description