1GUA

HUMAN RAP1A, RESIDUES 1-167, DOUBLE MUTANT (E30D,K31E) COMPLEXED WITH GPPNHP AND THE RAS-BINDING-DOMAIN OF HUMAN C-RAF1, RESIDUES 51-131


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Work: 0.220 
  • R-Value Observed: 0.220 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Ras/Rap effector specificity determined by charge reversal.

Nassar, N.Horn, G.Herrmann, C.Block, C.Janknecht, R.Wittinghofer, A.

(1996) Nat Struct Biol 3: 723-729

  • DOI: 10.1038/nsb0896-723
  • Primary Citation of Related Structures:  
    1GUA

  • PubMed Abstract: 
  • Members of the Ras subfamily of small GTP-binding proteins have been shown to be promiscuous towards a variety of putative effector molecules such as the protein kinase c-Raf and the Ral-specific guanine nucleotide exchange factor (Ral-GEF). To address the question of specificity of interactions we have introduced the mutations E30D and K31E into Rap and show biochemically, by X-ray structure analysis and by transfection in vivo that the identical core effector region of Ras and Rap (residues 32-40) is responsible for molecular recognition, but that residues outside this region are responsible for the specificity of the interaction ...

    Members of the Ras subfamily of small GTP-binding proteins have been shown to be promiscuous towards a variety of putative effector molecules such as the protein kinase c-Raf and the Ral-specific guanine nucleotide exchange factor (Ral-GEF). To address the question of specificity of interactions we have introduced the mutations E30D and K31E into Rap and show biochemically, by X-ray structure analysis and by transfection in vivo that the identical core effector region of Ras and Rap (residues 32-40) is responsible for molecular recognition, but that residues outside this region are responsible for the specificity of the interaction. The major determinant for the switch in specificity is the opposite charge of residue 31--Lys in Rap, Glu in Ras--which creates a favourable complementary interface for the Ras-Raf interaction.


    Related Citations: 
    • Quantitative Structure-Activity Analysis Correlating Ras/Raf Interaction in Vitro to Raf Activation in Vivo
      Block, C., Janknecht, R., Herrmann, C., Nassar, N., Wittinghofer, A.
      (1996) Nat Struct Biol 3: 244
    • Quantitative Analysis of the Complex between P21Ras and the Ras-Binding Domain of the Human Raf-1 Protein Kinase
      Herrmann, C., Martin, G.A., Wittinghofer, A.
      (1995) J Biol Chem 270: 2901
    • The 2.2 A Crystal Structure of the Ras-Binding Domain of the Serine/Threonine Kinase C-Raf1 in Complex with RAP1A and a GTP Analogue
      Nassar, N., Horn, G., Herrmann, C., Scherer, A., Mccormick, F., Wittinghofer, A.
      (1995) Nature 375: 554

    Organizational Affiliation

    Max-Planck-Institut für molekulare Physiologie, Abteilung Strukturelle Biologie, Dortmund, Germany.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
RAP1A A167Homo sapiensMutation(s): 2 
Gene Names: HUMAN C-RAF1 GENE RESIDUES 51RAP1AKREV1
EC: 3.6.5.2
Find proteins for P62834 (Homo sapiens)
Explore P62834 
Go to UniProtKB:  P62834
NIH Common Fund Data Resources
PHAROS:  P62834
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
C-RAF1 B81Homo sapiensMutation(s): 0 
Gene Names: HUMAN C-RAF1 GENE RESIDUES 51RAF1RAF
EC: 2.7.1 (PDB Primary Data), 2.7.11.1 (UniProt)
Find proteins for P04049 (Homo sapiens)
Explore P04049 
Go to UniProtKB:  P04049
NIH Common Fund Data Resources
PHAROS:  P04049
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GNP
Query on GNP

Download Ideal Coordinates CCD File 
A
PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
C10 H17 N6 O13 P3
UQABYHGXWYXDTK-UUOKFMHZSA-N
 Ligand Interaction
CA
Query on CA

Download Ideal Coordinates CCD File 
B
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download Ideal Coordinates CCD File 
A
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
GNPKd:  40   nM  Binding MOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Work: 0.220 
  • R-Value Observed: 0.220 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 44.5α = 90
b = 71.8β = 90
c = 100.3γ = 90
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORrefinement
XDSdata reduction
X-PLORphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1997-01-11
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance