3ODO | pdb_00003odo

Crystal Structure of the DH/PH Domains of p115-RhoGEF

• PDB DOI: https://doi.org/10.2210/pdb3ODO/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2010-08-11 Released: 2011-01-05 
• Deposition Author(s): Chen, Z., Guo, L., Sprang, S.R., Sternweis, P.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 
  0.272 (Depositor), 0.267 (DCC) 
• R-Value Work: 
  0.221 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.223 (Depositor) 

Starting Model: experimental

Literature

Modulation of a GEF switch: Autoinhibition of the intrinsic guanine nucleotide exchange activity of p115-RhoREF

Chen, Z., Guo, L., Sprang, S.R., Sternweis, P.C.

(2011) Protein Sci 20: 107-117

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 87.54 kDa 
• Atom Count: 6,068 
• Modeled Residue Count: 740 
• Deposited Residue Count: 750 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Rho guanine nucleotide exchange factor 1	A, B	375	Homo sapiens	Mutation(s): 0  Gene Names: ARHGEF1
UniProt & NIH Common Fund Data Resources
Find proteins for Q92888 (Homo sapiens) Explore Q92888  Go to UniProtKB:  Q92888
PHAROS:  Q92888 GTEx:  ENSG00000076928

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free:  0.272 (Depositor), 0.267 (DCC) 
• R-Value Work:  0.221 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.223 (Depositor) 

Space Group: P 4₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 106.049	α = 90
b = 106.049	β = 90
c = 125.973	γ = 90

Software Package:

Software Name	Purpose
HKL-3000	data collection
PHASER	phasing
REFMAC	refinement
HKL-3000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-01-05 
Deposition Author(s): Chen, Z., Guo, L., Sprang, S.R., Sternweis, P.C.

Revision History  

• Version 1.0: 2011-01-05
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-09-06
  Changes: Data collection, Database references, Refinement description