1LFD

CRYSTAL STRUCTURE OF THE ACTIVE RAS PROTEIN COMPLEXED WITH THE RAS-INTERACTING DOMAIN OF RALGDS


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.282 
  • R-Value Work: 0.206 
  • R-Value Observed: 0.206 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structural basis for the interaction of Ras with RalGDS.

Huang, L.Hofer, F.Martin, G.S.Kim, S.H.

(1998) Nat Struct Biol 5: 422-426

  • DOI: 10.1038/nsb0698-422
  • Primary Citation of Related Structures:  
    1LFD

  • PubMed Abstract: 
  • The Ras protein signals to a number of distinct pathways by interacting with diverse downstream effectors. Among the effectors of Ras are the Raf kinase and RalGDS, a guanine nucleotide dissociation stimulator specific for Ral. Despite the absence of ...

    The Ras protein signals to a number of distinct pathways by interacting with diverse downstream effectors. Among the effectors of Ras are the Raf kinase and RalGDS, a guanine nucleotide dissociation stimulator specific for Ral. Despite the absence of significant sequence similarities, both effectors bind directly to Ras, but with different specificities. We report here the 2.1 A crystal structure of the complex between Ras and the Ras-interacting domain (RID) of RalGDS. This structure reveals that the beta-sheet of the RID joins the switch I region of Ras to form an extended beta-sheet with a topology similar to that found in the Rap-Raf complex. However, the side chain interactions at the joining junctions of the two interacting systems and the relative orientation of the two binding domains are distinctly different. Furthermore, in the case of the Ras-RID complex a second RID molecule also interacts with a different part of the Ras molecule, the switch II region. These findings account for the cross-talk between the Ras and Ral pathways and the specificity with which Ras distinguishes the two effectors.


    Related Citations: 
    • Three-Dimensional Structure of the Ras-Interacting Domain of Ralgds
      Huang, L., Weng, X., Hofer, F., Martin, G.S., Kim, S.H.
      (1997) Nat Struct Biol 4: 609
    • Erratum. Three-Dimensional Structure of the Ras-Interacting Domain of Ralgds
      Huang, L., Weng, X., Hofer, F., Martin, G.S., Kim, S.H.
      (1997) Nat Struct Biol 4: 840
    • Activated Ras Interacts with the Ral Guanine Nucleotide Dissociation Stimulator
      Hofer, F., Fields, S., Schneider, C., Martin, G.S.
      (1994) Proc Natl Acad Sci U S A 91: 11089

    Organizational Affiliation

    Department of Chemistry and E.O. Lawrence Berkeley National Laboratory, University of California, Berkeley 94720, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
RALGDSA, C87Rattus norvegicusMutation(s): 0 
Gene Names: HUMAN RASRalgds
Find proteins for Q03386 (Rattus norvegicus)
Explore Q03386 
Go to UniProtKB:  Q03386
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
RASB, D167Homo sapiensMutation(s): 1 
Gene Names: HUMAN RASHRASHRAS1
EC: 3.6.5.2
Find proteins for P01112 (Homo sapiens)
Explore P01112 
Go to UniProtKB:  P01112
NIH Common Fund Data Resources
PHAROS  P01112
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GNP
Query on GNP

Download CCD File 
B, D
PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
C10 H17 N6 O13 P3
UQABYHGXWYXDTK-UUOKFMHZSA-N
 Ligand Interaction
MG
Query on MG

Download CCD File 
B, D
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.282 
  • R-Value Work: 0.206 
  • R-Value Observed: 0.206 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 75.648α = 90
b = 78.256β = 90
c = 87.313γ = 90
Software Package:
Software NamePurpose
EPMRphasing
X-PLORrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1999-05-04
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2018-03-14
    Changes: Database references