1CLU

H-RAS COMPLEXED WITH DIAMINOBENZOPHENONE-BETA,GAMMA-IMIDO-GTP

PDB DOI: 10.2210/pdb1CLU/pdb

Classification: HYDROLASE
Organism(s): Homo sapiens
Mutation(s): Yes

Deposited: 1999-05-03 Released: 1999-05-28
Deposition Author(s): Ahmadian, M.R., Zor, T., Vogt, D., Kabsch, W., Selinger, Z., Wittinghofer, A., Scheffzek, K.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.261
R-Value Work: 0.203

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.4 of the entry. See complete history.

Literature

Guanosine triphosphatase stimulation of oncogenic Ras mutants.

Ahmadian, M.R., Zor, T., Vogt, D., Kabsch, W., Selinger, Z., Wittinghofer, A., Scheffzek, K.

(1999) Proc Natl Acad Sci U S A 96: 7065-7070

PubMed: 10359839 Search on PubMedSearch on PubMed Central
DOI: 10.1073/pnas.96.12.7065
Primary Citation of Related Structures:
1CLU, 1RVD

PubMed Abstract:

Interest in the guanosine triphosphatase (GTPase) reaction of Ras as a molecular drug target stems from the observation that, in a large number of human tumors, Ras is characteristically mutated at codons 12 or 61, more rarely 13. Impaired GTPase activity, even in the presence of GTPase activating proteins, has been found to be the biochemical reason behind the oncogenicity of most Gly12/Gln61 mutations, thus preventing Ras from being switched off. Therefore, these oncogenic Ras mutants remain constitutively activated and contribute to the neoplastic phenotype of tumor cells. Here, we show that the guanosine 5'-triphosphate (GTP) analogue diaminobenzophenone-phosphoroamidate-GTP (DABP-GTP) is hydrolyzed by wild-type Ras but more efficiently by frequently occurring oncogenic Ras mutants, to yield guanosine 5'-diphosphate-bound inactive Ras and DABP-Pi. The reaction is independent of the presence of Gln61 and is most dramatically enhanced with Gly12 mutants. Thus, the defective GTPase reaction of the oncogenic Ras mutants can be rescued by using DABP-GTP instead of GTP, arguing that the GTPase switch of Ras is not irreversibly damaged. An exocyclic aromatic amino group of DABP-GTP is critical for the reaction and bypasses the putative rate-limiting step of the intrinsic Ras GTPase reaction. The crystal structures of Ras-bound DABP-beta,gamma-imido-GTP show a disordered switch I and identify the Gly12/Gly13 region as the hydrophobic patch to accommodate the DABP-moiety. The biochemical and structural studies help to define the requirements for the design of anti-Ras drugs aimed at the blocked GTPase reaction.

Related Citations:

GTP analogue hydrolysis by the Gs protein: implication for the role of catalytic glutamine in the GTPase reaction.
Zor, T., Andorn, R., Sofer, I., Chorev, M., Selinger, Z.
(1998) FEBS Lett 433: 326

Rescue of a mutant G-protein by substrate-assisted catalysis.
Zor, T., Bar-Yaacov, M., Elgavish, S., Shaanan, B., Selinger, Z.
(1997) Eur J Biochem 249: 330

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.
(1993) Biochemistry 32: 8411

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

Organizational Affiliation:

Abteilung Strukturelle Biologie, Max-Planck-Institut für molekulare Physiologie, Otto-Hahn-Strasse 11, 44227 Dortmund, Germany.

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TRANSFORMING PROTEIN P21/H-RAS-1	A	166	Homo sapiens	Mutation(s): 1 Gene Names: H-RAS-1, HRAS, HRAS1 EC: 3.6.5.2
UniProt & NIH Common Fund Data Resources
Find proteins for P01112 (Homo sapiens) Explore P01112 Go to UniProtKB: P01112
PHAROS: P01112
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P01112
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
DBG Query on DBG Download Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A]	C [auth A]	3-AMINOBENZOPHENONE-4-YL-AMINOHYDROXYPHOSPHINYLAMINOPHOSPHONIC ACID-GUANYLATE ESTER C₂₃ H₂₇ N₈ O₁₃ P₃ MXYGEAAJPIMEHV-CIVUBGFFSA-N		Ligand Interaction
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A]	B [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Ligand Interaction