1GQE | pdb_00001gqe

Polypeptide Chain Release Factor 2 (RF2) from Escherichia coli

• PDB DOI: https://doi.org/10.2210/pdb1GQE/pdb

• Classification: TRANSLATION
• Organism(s): Escherichia coli K-12
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2001-11-22 Released: 2002-04-04 
• Deposition Author(s): Vestergaard, B., Kjeldgaard, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.81 Å
• R-Value Free: 
  0.247 (Depositor) 
• R-Value Work: 
  0.222 (Depositor), 0.228 (DCC) 
• R-Value Observed: 
  0.222 (Depositor) 

Literature

Bacterial Polypeptide Release Factor Rf2 is Structurally Distinct from Eukaryotic Erf1.

Vestergaard, B., Van, L., Andersen, G., Nyborg, J., Buckingham, R., Kjeldgaard, M.

(2001) Mol Cell 8: 1375

• PubMed: 11779511 
• DOI: https://doi.org/10.1016/s1097-2765(01)00415-4
• Primary Citation Related Structures: 
  1GQE


• PubMed Abstract: 
  

  Bacterial release factor RF2 promotes termination of protein synthesis, specifically recognizing stop codons UAA or UGA. The crystal structure of Escherichia coli RF2 has been determined to a resolution of 1.8 A. RF2 is structurally distinct from its eukaryotic counterpart eRF1. The tripeptide SPF motif, thought to confer RF2 stop codon specificity, and the universally conserved GGQ motif, proposed to be involved with the peptidyl transferase center, are exposed in loops only 23 A apart, and the structure suggests that stop signal recognition is more complex than generally believed.

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Organizational Affiliation: 
• Institute of Molecular and Structural Biology, University of Aarhus, DK-8000 Aarhus C, Denmark.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PQS (software)

Macromolecule Content 

• Total Structure Weight: 41.68 kDa 
• Atom Count: 3,152 
• Modeled Residue Count: 362 
• Deposited Residue Count: 365 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RELEASE FACTOR 2	A	365	Escherichia coli K-12	Mutation(s): 1
UniProt
Find proteins for P07012 (Escherichia coli (strain K12)) Explore P07012  Go to UniProtKB:  P07012

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.81 Å
• R-Value Free:  0.247 (Depositor) 
• R-Value Work:  0.222 (Depositor), 0.228 (DCC) 
• R-Value Observed: 0.222 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.388	α = 90
b = 49.893	β = 107.01
c = 63.144	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2002-04-04 
Deposition Author(s): Vestergaard, B., Kjeldgaard, M.

Revision History  

• Version 1.0: 2002-04-04
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-10-16
  Changes: Data collection, Database references, Derived calculations, Other, Structure summary