8ZO0 | pdb_00008zo0

Samll GTPase RhoA Y42C mutant in complex with GTP analogue


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.21 Å
  • R-Value Free: 
    0.240 (Depositor), 0.240 (DCC) 
  • R-Value Work: 
    0.184 (Depositor), 0.183 (DCC) 

Starting Model: experimental
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Ligand Structure Quality Assessment 


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Literature

Discovering Targetable Conformation of RhoA Mutant by Integrating Native Mass Spectrometry, Ultraviolet Photodissociation, and X-ray Diffraction.

Wu, H.Liu, Z.Jiang, H.Zhao, H.Dong, C.Lu, Y.Zu, S.Guo, Y.Lai, C.Luo, P.Xu, K.Yang, Y.Yang, Y.Sun, Z.Huang, Q.Xiong, H.Zhou, L.Luo, Y.Zeng, Y.Du, D.Liang, Z.Xiao, W.Zhao, S.Zhang, W.Tang, Y.Xiao, C.Chen, K.Yang, X.Wang, F.Luo, C.

(2026) J Am Chem Soc 

  • DOI: https://doi.org/10.1021/jacs.5c20067
  • Primary Citation Related Structures: 
    8ZNY, 8ZO0, 9VNG, 9VNH, 9VNI

  • PubMed Abstract: 

    Pathogenic mutations in "undruggable" Ras superfamily proteins challenge drug development by inducing subtle, dynamic conformational changes. Here, we integrated X-ray crystallography with native mass spectrometry and ultraviolet photodissociation (nMS-UVPD) to reveal a cryptic conformation in the oncogenic Y42C mutant of RhoA. While crystallography alone resolved two ambiguous structures, nMS-UVPD determined the dominant conformation by directly mapping the mutant's conformational dynamics, identifying an enhanced Mg 2+ -locked conformation. We explored the mechanism of mutation impairing GTP hydrolysis. This state unmasks a previously hidden, druggable pocket adjacent to Cys42, guiding our identification of a covalent inhibitor. Our integrated approach establishes a roadmap for targeting pathogenic protein mutants previously considered "undruggable" due to their highly dynamic nature.


  • Organizational Affiliation
    • State Key Laboratory of Discovery and Utilization of Functional Components in Traditional Chinese Medicine, Guizhou Medical University, Guiyang 561113, China.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Transforming protein RhoA182Homo sapiensMutation(s): 1 
Gene Names: RHOAARH12ARHARHO12
EC: 3.6.5.2
UniProt & NIH Common Fund Data Resources
Find proteins for P61586 (Homo sapiens)
Explore P61586 
Go to UniProtKB:  P61586
PHAROS:  P61586
GTEx:  ENSG00000067560 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP61586
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.21 Å
  • R-Value Free:  0.240 (Depositor), 0.240 (DCC) 
  • R-Value Work:  0.184 (Depositor), 0.183 (DCC) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 32.278α = 90
b = 63.682β = 90
c = 81.595γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PHENIXphasing
HKL-3000data scaling

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China--

Revision History  (Full details and data files)

  • Version 1.0: 2025-06-04
    Type: Initial release
  • Version 1.1: 2026-04-01
    Changes: Database references