Biological Assembly 1  

 3D View: Structure | Ligand Interaction

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Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 19479.73 
• Atom Count: 1360 
• Residue Count: 166 
• Unique protein chains: 1

1AGP

THREE-DIMENSIONAL STRUCTURES AND PROPERTIES OF A TRANSFORMING AND A NONTRANSFORMING GLY-12 MUTANT OF P21-H-RAS

• DOI: 10.2210/pdb1AGP/pdb

• Classification: ONCOGENE PROTEIN
• Organism(s): Homo sapiens
• Mutation(s): 1 


• Deposited: 1993-03-29 Released: 1994-04-30 
• Deposition Author(s): Franken, S.M., Scheidig, A.J., Wittinghofer, A., Goody, R.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.3 Å
• R-Value Work: 0.177 

Literature

Three-dimensional structures and properties of a transforming and a nontransforming glycine-12 mutant of p21H-ras.

Franken, S.M., Scheidig, A.J., Krengel, U., Rensland, H., Lautwein, A., Geyer, M., Scheffzek, K., Goody, R.S., Kalbitzer, H.R., Pai, E.F., Wittinghofer, A.

(1993) Biochemistry 32: 8411-8420

• PubMed: 8357792 
• Primary Citation of Related Structures:  
  821P


• PubMed Abstract: 
  

The three-dimensional structures and biochemical properties of two mutants of the G-domain (residues 1-166) of p21H-ras, p21 (G12D) and p21 (G12P), have been determined in the triphosphate-bound form using guanosine 5'-(beta,gamma-imido)triphosphate (GppNHp). They correspond to the most frequent oncogenic and the only nononcogenic mutation of Gly-12, respectively. The G12D mutation is the only mutant analyzed so far that crystallizes in a space group different from wild type, and the atomic model of the protein shows the most drastic changes of structure around the active site as compared to wild-type p21. This is due to the interactions of the aspartic acid side chain with Tyr-32, Gln-61, and the gamma-phosphate, which result in reduced mobility of these structural elements. The interaction between the carboxylate group of Asp-12 and the gamma-phosphate is mediated by a shared proton, which we show by 31P NMR measurements to exist in solution as well. The structure of p21 (G12P) is remarkably similar to that of wild-type p21 in the active site, including the position of the nucleophilic water. The pyrrolidine ring of Pro-12 points outward and seems to be responsible for the weaker affinity toward GAP (GTPase-activating protein) and the failure of GAP to stimulate GTP hydrolysis.

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Related Citations: 

• Three-Dimensional Structures of H-Ras P21 Mutants: Molecular Basis for Their Inability to Function as Signal Switch Molecules
  Krengel, U.,Schlichting, I.,Scherer, A.,Schumann, R.,Frech, M.,John, J.,Kabsch, W.,Pai, E.F.,Wittinghofer, A.
  (1990) Cell 62: 539
• Refined Crystal Structure of the Triphosphate Conformation of H-Ras P21 at 1.35 Angstroms Resolution: Implications for the Mechanism of GTP Hydrolysis
  Pai, E.F.,Krengel, U.,Petsko, G.A.,Goody, R.S.,Kabsch, W.,Wittinghofer, A.
  (1990) Embo J. 9: 2351




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Organizational Affiliation: 

Abteilung Biophysik, Max-Planck-Institut für Medizinische Forschung, Heidelberg, Germany.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
C-H-RAS P21 PROTEIN	A	166	Homo sapiens	Mutation(s): 1  Gene Names: HRAS (HRAS1)
Find proteins for P01112 (Homo sapiens) Go to Gene View: HRAS Go to UniProtKB:  P01112

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
MG	A	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N
GNP	A	PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER C10 H17 N6 O13 P3 UQABYHGXWYXDTK-UUOKFMHZSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.3 Å
• R-Value Work: 0.177 
• Space Group: C 1 2 1

Unit Cell:

Length (Å)	Angle (°)
a = 69.910	α = 90.00
b = 39.810	β = 107.40
c = 56.100	γ = 90.00

Software Package:

Software Name	Purpose
X-PLOR	refinement
X-PLOR	phasing
X-PLOR	model building

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1993-03-29 
• Released Date: 1994-04-30 
• Deposition Author(s): Franken, S.M., Scheidig, A.J., Wittinghofer, A., Goody, R.S.

Revision History 

• Version 1.0: 1994-04-30
  Type: Initial release
• Version 1.1: 2008-03-24
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2012-02-22
  Type: Database references
• Version 1.4: 2012-03-07
  Type: Database references
• Version 1.5: 2017-11-29
  Type: Derived calculations, Other