9ZQ7 | pdb_00009zq7

Autoinhibited P-Rex2

  • Classification: SIGNALING PROTEIN
  • Organism(s): Homo sapiens
  • Expression System: Homo sapiens
  • Mutation(s): No 

  • Deposited: 2025-12-17 Released: 2026-07-15 
  • Deposition Author(s): Anderson, L.K., Cash, J.N.
  • Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), National Institutes of Health/National Center for Advancing Translational Sciences (NIH/NCATS)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 5.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

Validation slider image for 9ZQ7

This is version 1.0 of the entry. See complete history

Literature

The Rho guanine-nucleotide exchange factor P-Rex2 exhibits structural and regulatory features distinct from the related RhoGEF P-Rex1.

Anderson, L.K.Marde, R.Muma, G.Nayak, V.Phan, C.Li, S.Cash, J.N.

(2026) J Biol Chem 302: 113229-113229

  • DOI: https://doi.org/10.1016/j.jbc.2026.113229
  • Primary Citation Related Structures: 
    9ZQ7

  • PubMed Abstract: 

    Rho guanine-nucleotide exchange factors (RhoGEFs) activate small GTPases to drive cytoskeletal rearrangement, cell motility, and proliferation. The phosphatidylinositol-3,4,5-trisphosphate (PIP 3 )-dependent Rac exchanger (P-Rex) subfamily of RhoGEFs includes P-Rex1 and P-Rex2 which, when misregulated, contribute to cancer progression and metastasis. P-Rex activity is controlled by accessory domains that maintain the protein in a cytosolic, autoinhibited state until activated by the lipid PIP 3 and G protein βγ subunits. While P-Rex1 autoinhibition has been structurally and biochemically characterized, P-Rex2 has remained largely unexplored. Furthermore, despite high sequence similarity and domain conservation, P-Rex homologs differ in substrate specificity and regulatory interactions, and the molecular basis for these divergences is unknown. Here, we have taken an integrative structural biology approach to investigate these gaps. Using cryo-EM, we determined the first structure of full-length P-Rex2 to moderate resolution, revealing that, while the overall structure closely resembles that of P-Rex1, there is a substantial repositioning of the N-terminal module relative to the C-terminal core. This may play a key role in precluding the intramolecular interactions between the N- and C-terminal domains that are observed in autoinhibited P-Rex1. Hydrogen-deuterium exchange mass spectrometry revealed that, unlike P-Rex1, P-Rex2 dynamics are unaffected by IP 4 , the headgroup of PIP 3 . SEC-SAXS data support that the N-terminal module itself is less dynamic, and biochemical assays show that P-Rex2 may be differently regulated by autoinhibition, likely through a mechanism divergent from P-Rex1. These findings uncover unique features in the molecular mechanisms of P-Rex2 regulation.


  • Organizational Affiliation
    • Department of Molecular and Cellular Biology, University of California - Davis, Davis, California, USA.

Macromolecule Content 

  • Total Structure Weight: 184.51 kDa 
  • Atom Count: 8,320 
  • Modeled Residue Count: 1,035 
  • Deposited Residue Count: 1,621 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Phosphatidylinositol 3,4,5-trisphosphate-dependent Rac exchanger 2 protein1,621Homo sapiensMutation(s): 0 
Gene Names: PREX2DEPDC2
UniProt & NIH Common Fund Data Resources
Find proteins for Q70Z35 (Homo sapiens)
Explore Q70Z35 
Go to UniProtKB:  Q70Z35
PHAROS:  Q70Z35
GTEx:  ENSG00000046889 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ70Z35
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 5.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONPHENIX
MODEL REFINEMENTPHENIX

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR35GM146664
National Institutes of Health/National Center for Advancing Translational Sciences (NIH/NCATS)United StatesUL1 TR001860
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR24GM154185

Revision History  (Full details and data files)

  • Version 1.0: 2026-07-15
    Type: Initial release