6BCA

A Complex between PH Domain of LbcRhoGEF (AKAP-Lbc) and Activated RhoA Bound to a GTP Analog


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.995 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.196 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structures of the PH domains from Lbc family of RhoGEFs bound to activated RhoA GTPase.

Chen, Z.Gutowski, S.Sternweis, P.C.

(2018) Data Brief 17: 356-362

  • DOI: 10.1016/j.dib.2018.01.024
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The Pleckstrin homology (PH) domains from the Lbc family of Rho Guanine Nucleotide Exchange Factors (Lbc RhoGEFs) interact with activated Rho family GTPases. All 7 Lbc RhoGEFs associate directly with activated Rho GTPases via their PH domains. Howeve ...

    The Pleckstrin homology (PH) domains from the Lbc family of Rho Guanine Nucleotide Exchange Factors (Lbc RhoGEFs) interact with activated Rho family GTPases. All 7 Lbc RhoGEFs associate directly with activated Rho GTPases via their PH domains. However, the binding affinities between the PH domains and the GTPases vary greatly. Here we present two crystal structures at resolutions of 1.4 Å and 2.0 Å of RhoA complexed with the PH domain from p114RhoGEF (PDB access code 6BCB) and AKAP-LbcRhoGEF (PDB access code 6BCA), respectively. These high resolution structures, together with the earlier structures of PDZRhoGEF-PH·RhoA and p190RhoGEF-PH·RhoA complexes, identify a highly conserved interface between the PH domains from Lbc-RhoGEFs and activated Rho GTPases. This manuscript is related to the manuscript titled "Direct Regulation of p190RhoGEF by Activated Rho and Rac GTPases" published in the Journal of Structural Biology.


    Organizational Affiliation

    Department of Biophysics, The University of Texas Southwestern Medical Center, 6001 Forest Park Road, Dallas, TX 75390, United States.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Transforming protein RhoA
F, C
185Homo sapiensMutation(s): 0 
Gene Names: RHOA (ARH12, ARHA, RHO12)
EC: 3.6.5.2
Find proteins for P61586 (Homo sapiens)
Go to Gene View: RHOA
Go to UniProtKB:  P61586
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
A-kinase anchor protein 13
A, B
151Homo sapiensMutation(s): 0 
Gene Names: AKAP13 (BRX, HT31, LBC)
Find proteins for Q12802 (Homo sapiens)
Go to Gene View: AKAP13
Go to UniProtKB:  Q12802
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

Download SDF File 
Download CCD File 
C, F
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
GSP
Query on GSP

Download SDF File 
Download CCD File 
C, F
5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE
C10 H16 N5 O13 P3 S
XOFLBQFBSOEHOG-UUOKFMHZSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.995 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.196 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 51.346α = 91.83
b = 60.525β = 92.97
c = 63.618γ = 90.01
Software Package:
Software NamePurpose
HKL-2000data reduction
PHENIXrefinement
PHASERphasing
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical SciencesUnited StatesNIH-5R01GM031954

Revision History 

  • Version 1.0: 2017-12-13
    Type: Initial release
  • Version 1.1: 2018-01-17
    Type: Author supporting evidence
  • Version 1.2: 2018-06-27
    Type: Data collection, Database references