1IVS

CRYSTAL STRUCTURE OF THERMUS THERMOPHILUS VALYL-TRNA SYNTHETASE COMPLEXED WITH TRNA(VAL) AND VALYL-ADENYLATE ANALOGUE

Structural Biology Knowledgebase: 1IVS SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.282
  • R-Value Work: 0.248

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1IVS

Classification: LIGASE / RNA

Total Structure Weight: 247068.54


Macromolecule Entities
Molecule Chains Length Organism Details
Valyl-tRNA synthetase A, B 862 Thermus thermophilus EC#: 6.1.1.9 IUBMB
Gene Name(s): valS
Macromolecule Entities
Molecule Chains Length Organism Details
tRNA (Val) C, D 75 synthetic tRNA (Val) with the CAC anticodon

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
VAA
Query on VAA

A, B N-[VALINYL]-N'-[ADENOSYL]-DIAMINOSUFONE
C15 H24 N8 O6 S
ILBDFTSSTCBHRF-CYUGOOACSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.282
  • R-Value Work: 0.248
  • Space Group: P 42 21 2

Unit Cell:

Length (Å) Angle (°)
a = 411.81 α = 90.00
b = 411.81 β = 90.00
c = 81.97 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-03-29
  • Released Date: 2003-02-11
  • Deposition author(s): Fukai, S., Nureki, O., Sekine, S.-I., Shimada, A., 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