1B23

E. coli cysteinyl-tRNA and T. aquaticus elongation factor EF-TU:GTP ternary complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.206 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

The crystal structure of Cys-tRNACys-EF-Tu-GDPNP reveals general and specific features in the ternary complex and in tRNA.

Nissen, P.Thirup, S.Kjeldgaard, M.Nyborg, J.

(1999) Structure Fold.Des. 7: 143-156


  • PubMed Abstract: 
  • . The translation elongation factor EF-Tu in its GTP-bound state forms a ternary complex with any aminoacylated tRNA (aa-tRNA), except initiator tRNA and selenocysteinyl-tRNA. This complex delivers aa-tRNA to the ribosomal A site during the elongatio ...

    . The translation elongation factor EF-Tu in its GTP-bound state forms a ternary complex with any aminoacylated tRNA (aa-tRNA), except initiator tRNA and selenocysteinyl-tRNA. This complex delivers aa-tRNA to the ribosomal A site during the elongation cycle of translation. The crystal structure of the yeast Phe-tRNAPhe ternary complex with Thermus aquaticus EF-Tu-GDPNP (Phe-TC) has previously been determined as one representative of this general yet highly discriminating complex formation.


    Related Citations: 
    • Crystal Structure of the Ternary Complex of Phe-tRNAphe, EF-TU, and a GTP Analog
      Nissen, P.,Kjeldgaard, M.,Thirup, S.,Polekhina, G.,Reshetnikova, L.,Clark, B.F.C.,Nyborg, J.
      (1995) Science 270: 1464


    Organizational Affiliation

    Institute of Molecular and Structural Biology, Aarhus University, Gustav Wieds Vej 10, C DK 8000 Aarhus C, Denmark.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
ELONGATION FACTOR TU
P
405Thermus aquaticusMutation(s): 0 
Gene Names: tuf (tufA)
Find proteins for Q01698 (Thermus aquaticus)
Go to UniProtKB:  Q01698
Entity ID: 1
MoleculeChainsLengthOrganism
CYSTEINYL TRNAR74Escherichia coli
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
P
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
P, R
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
GNP
Query on GNP

Download SDF File 
Download CCD File 
P
PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
C10 H17 N6 O13 P3
UQABYHGXWYXDTK-UUOKFMHZSA-N
 Ligand Interaction
CYS
Query on CYS

Download SDF File 
Download CCD File 
R
CYSTEINE
C3 H7 N O2 S
XUJNEKJLAYXESH-REOHCLBHSA-N
 Ligand Interaction
Modified Residues  5 Unique
IDChainsTypeFormula2D DiagramParent
PSU
Query on PSU
R
RNA LINKINGC9 H13 N2 O9 PU
4SU
Query on 4SU
R
RNA LINKINGC9 H13 N2 O8 P SU
MIA
Query on MIA
R
RNA LINKINGC16 H26 N5 O7 P SA
5MU
Query on 5MU
R
RNA LINKINGC10 H15 N2 O9 PU
H2U
Query on H2U
R
RNA LINKINGC9 H15 N2 O9 PU
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.263 
  • R-Value Work: 0.206 
  • Space Group: F 2 2 2
Unit Cell:
Length (Å)Angle (°)
a = 126.750α = 90.00
b = 132.980β = 90.00
c = 154.880γ = 90.00
Software Package:
Software NamePurpose
X-PLORrefinement
AMoREphasing
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1998-12-07
    Type: Initial release
  • Version 1.1: 2008-04-26
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2011-11-16
    Type: Atomic model