3EAP | pdb_00003eap

Crystal structure of the RhoGAP domain of ARHGAP11A

• PDB DOI: https://doi.org/10.2210/pdb3EAP/pdb

• Classification: hydrolase activator
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-08-26 Released: 2008-09-02 
• Deposition Author(s): Shen, Y., Shen, L., Tong, Y., Tempel, W., MacKenzie, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Bochkarev, A., Park, H., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.277 (Depositor), 0.301 (DCC) 
• R-Value Work: 
  0.227 (Depositor), 0.262 (DCC) 
• R-Value Observed: 
  0.230 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of the RhoGAP domain of ARHGAP11A

Shen, Y., Shen, L., Tong, Y., Tempel, W., MacKenzie, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Bochkarev, A., Park, H.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 generated by PISA (software)

Biological Assembly 4  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 4 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 121.89 kDa 
• Atom Count: 6,525 
• Modeled Residue Count: 866 
• Deposited Residue Count: 1,084 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Rho GTPase-activating protein 11A	A, B, C, D	271	Homo sapiens	Mutation(s): 0  Gene Names: ARHGAP11A
UniProt & NIH Common Fund Data Resources
Find proteins for Q6P4F7 (Homo sapiens) Explore Q6P4F7  Go to UniProtKB:  Q6P4F7
PHAROS:  Q6P4F7 GTEx:  ENSG00000198826

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
UNX	E [auth A], F [auth B], G [auth B], H [auth B], I [auth B], J [auth C]	UNKNOWN ATOM OR ION X

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.277 (Depositor), 0.301 (DCC) 
• R-Value Work:  0.227 (Depositor), 0.262 (DCC) 
• R-Value Observed: 0.230 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.066	α = 90
b = 106.15	β = 97.16
c = 107.335	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
HKL-2000	data scaling
tlsmd	refinement
FFAS03/SCWRL	refinement
Coot	model building
MolProbity	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-09-02 
Deposition Author(s): Shen, Y., Shen, L., Tong, Y., Tempel, W., MacKenzie, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C., Weigelt, J., Bochkarev, A., Park, H., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2008-09-02
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-10-25
  Changes: Refinement description
• Version 1.3: 2020-10-14
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.4: 2023-08-30
  Changes: Data collection, Database references, Refinement description
• Version 1.5: 2025-10-22
  Changes: Derived calculations, Structure summary