4RUG

Cyrstal structure of SLIT-ROBO Rho GTPase-activating protein 2 fragment


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.73 Å
  • R-Value Free: 0.222 
  • R-Value Work: 0.189 
  • R-Value Observed: 0.191 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

The Neuronal Migration Factor srGAP2 Achieves Specificity in Ligand Binding through a Two-Component Molecular Mechanism.

Guez-Haddad, J.Sporny, M.Sasson, Y.Gevorkyan-Airapetov, L.Lahav-Mankovski, N.Margulies, D.Radzimanowski, J.Opatowsky, Y.

(2015) Structure 23: 1989-2000

  • DOI: https://doi.org/10.1016/j.str.2015.08.009
  • Primary Citation of Related Structures:  
    4RTT, 4RUG

  • PubMed Abstract: 

    srGAP proteins regulate cell migration and morphogenesis by shaping the structure and dynamics of the cytoskeleton and membranes. First discovered as intracellular effectors for the Robo1 axon-guidance receptor, srGAPs were later identified as interacting with several other nuclear and cytoplasmic proteins. In all these cases, the srGAP SH3 domain mediates protein-protein interactions by recognizing a short proline-rich segment on the cognate-binding partner. However, as interactions between the isolated SH3 domain and a selected set of ligands show weak affinity and low specificity, it is not clear how srGAPs are precisely recruited to their signaling sites. Here, we report a two-component molecular mechanism that regulates ligand binding to srGAP2 by on the one hand dramatically tightening their association and on the other, moderately autoinhibiting and restricting binding. Our results allow the design of point mutations for better probing of srGAP2 activities, and may facilitate the identification of new srGAP2 ligands.


  • Organizational Affiliation

    The Mina & Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat Gan 5290002, Israel.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
SLIT-ROBO Rho GTPase-activating protein 2
A, B
92Homo sapiensMutation(s): 0 
Gene Names: SRGAP2ARHGAP34FNBP2KIAA0456SRGAP2A
UniProt & NIH Common Fund Data Resources
Find proteins for O75044 (Homo sapiens)
Explore O75044 
Go to UniProtKB:  O75044
PHAROS:  O75044
GTEx:  ENSG00000266028 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO75044
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.73 Å
  • R-Value Free: 0.222 
  • R-Value Work: 0.189 
  • R-Value Observed: 0.191 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 49.51α = 90
b = 31.35β = 113.07
c = 62.83γ = 90
Software Package:
Software NamePurpose
EDNAdata collection
BALBESphasing
REFMACrefinement
XDSdata reduction
XDSdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-11-04
    Type: Initial release
  • Version 1.1: 2015-11-18
    Changes: Database references
  • Version 1.2: 2017-11-22
    Changes: Refinement description
  • Version 1.3: 2024-02-28
    Changes: Data collection, Database references, Refinement description