1QRA

STRUCTURE OF P21RAS IN COMPLEX WITH GTP AT 100 K

• PDB DOI:  https://doi.org/10.2210/pdb1QRA/pdb

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


• Deposited: 1999-06-12 Released: 1999-11-05 
• Deposition Author(s): Scheidig, A., Burmester, C., Goody, R.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.228 
• R-Value Work: 0.168 
• R-Value Observed: 0.168 

Literature

The pre-hydrolysis state of p21(ras) in complex with GTP: new insights into the role of water molecules in the GTP hydrolysis reaction of ras-like proteins.

Scheidig, A.J., Burmester, C., Goody, R.S.

(1999) Structure 7: 1311-1324

• PubMed: 10574788 
• DOI: https://doi.org/10.1016/s0969-2126(00)80021-0
• Primary Citation of Related Structures:  
  1CTQ, 1QRA


• PubMed Abstract: 
  

  In numerous biological events the hydrolysis of guanine triphosphate (GTP) is a trigger to switch from the active to the inactive protein form. In spite of the availability of several high-resolution crystal structures, the details of the mechanism of nucleotide hydrolysis by GTPases are still unclear. This is partly because the structures of the proteins in their active states had to be determined in the presence of non-hydrolyzable GTP analogues (e.g. GppNHp). Knowledge of the structure of the true Michaelis complex might provide additional insights into the intrinsic protein hydrolysis mechanism of GTP and related nucleotides.

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Organizational Affiliation: 

Abteilung für Physikalische Biochemie, Max-Planck Institute for Molecular Physiology, Dortmund, 44227, Germany. [e-mail]

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 19.42 kDa 
• Atom Count: 1,602 
• Modelled Residue Count: 166 
• Deposited Residue Count: 166 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TRANSFORMING PROTEIN P21/H-RAS-1	A	166	Homo sapiens	Mutation(s): 0  Gene Names: 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

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GTP	C [auth A]	GUANOSINE-5'-TRIPHOSPHATE C10 H16 N5 O14 P3 XKMLYUALXHKNFT-UUOKFMHZSA-N
MG	B [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.228 
• R-Value Work: 0.168 
• R-Value Observed: 0.168 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 39.567	α = 90
b = 39.567	β = 90
c = 159.255	γ = 120

Software Package:

Software Name	Purpose
X-PLOR	model building
SHELXL-97	refinement
FRAMBO	data collection
XDS	data scaling
XSCALE	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-11-05 
Deposition Author(s): Scheidig, A., Burmester, C., Goody, R.S.

Revision History  

• Version 1.0: 1999-11-05
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-04
  Changes: Advisory, Refinement description
• Version 1.4: 2023-08-16
  Changes: Advisory, Data collection, Database references, Derived calculations, Refinement description