1N78

Crystal structure of Thermus thermophilus glutamyl-tRNA synthetase complexed with tRNA(Glu) and glutamol-AMP.

Structural Biology Knowledgebase: 1N78 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.219

Literature

Macromolecules
Sequence Display for 1N78

Classification: ligase / RNA

Total Structure Weight: 157160.88


Macromolecule Entities
Molecule Chains Length Organism Details
Glutamyl-tRNA synthetase A, B 468 Thermus thermophilus EC#: 6.1.1.17 IUBMB
Mutation: A74G, A75G, T77H
Gene Name(s): gltX TTHA0438
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
tRNA(Glu) C, D 75 synthetic

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
GOM
Query on GOM

A, B GLUTAMOL-AMP
C15 H22 N6 O9 P
JDELUWYDJMPPMI-SBZSCLMQSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

C, D MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.219
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 110.49 α = 90.00
b = 219.87 β = 90.00
c = 135.12 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-11-13
  • Released Date: 2003-02-25
  • Deposition author(s): Sekine, S., Nureki, O., Dubois, D.Y., Bernier, S., Chenevert, R., Lapointe, J., Vassylyev, D.G., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4