5H1D

Crystal structure of C-terminal of RhoGDI2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.49 Å
  • R-Value Free: 0.204 
  • R-Value Work: 0.154 
  • R-Value Observed: 0.156 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

NMR characterization of weak interactions between RhoGDI2 and fragment screening hits.

Liu, J.Gao, J.Li, F.Ma, R.Wei, Q.Wang, A.Wu, J.Ruan, K.

(2017) Biochim Biophys Acta 1861: 3061-3070

  • DOI: https://doi.org/10.1016/j.bbagen.2016.10.003
  • Primary Citation of Related Structures:  
    5H1D

  • PubMed Abstract: 

    The delineation of intrinsically weak interactions between novel targets and fragment screening hits has long limited the pace of hit-to-lead evolution. Rho guanine-nucleotide dissociation inhibitor 2 (RhoGDI2) is a novel target that lacks any chemical probes for the treatment of tumor metastasis.


  • Organizational Affiliation

    Hefei National Laboratory for Physical Science at the Microscale, School of Life Sciences, University of Science and Technology of China, Hefei, Anhui 230027, PR China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Rho GDP-dissociation inhibitor 2143Homo sapiensMutation(s): 0 
Gene Names: ARHGDIBGDIA2GDID4RAP1GN1
UniProt & NIH Common Fund Data Resources
Find proteins for P52566 (Homo sapiens)
Explore P52566 
Go to UniProtKB:  P52566
PHAROS:  P52566
GTEx:  ENSG00000111348 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP52566
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.49 Å
  • R-Value Free: 0.204 
  • R-Value Work: 0.154 
  • R-Value Observed: 0.156 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 55.02α = 90
b = 55.02β = 90
c = 96.8γ = 90
Software Package:
Software NamePurpose
SCALAdata scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
iMOSFLMdata reduction
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Released Date: 2016-10-26 
  • Deposition Author(s): Liu, J.

Revision History  (Full details and data files)

  • Version 1.0: 2016-10-26
    Type: Initial release
  • Version 1.1: 2017-02-22
    Changes: Database references
  • Version 1.2: 2023-11-08
    Changes: Data collection, Database references, Refinement description