1J1U

Crystal structure of archaeal tyrosyl-tRNA synthetase complexed with tRNA(Tyr) and L-tyrosine

Structural Biology Knowledgebase: 1J1U SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.239
  • R-Value Work: 0.188

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1J1U

Classification: ligase / RNA

Total Structure Weight: 60186.41


Macromolecule Entities
Molecule Chains Length Organism Details
Tyrosyl-tRNA synthetase A 306 Methanocaldococcus jannaschii EC#: 6.1.1.1 IUBMB
Gene Name(s): tyrS MJ0389
Macromolecule Entities
Molecule Chains Length Organism Details
tRNA(Tyr) B 77 synthetic

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

A TYROSINE
C9 H11 N O3
OUYCCCASQSFEME-QMMMGPOBSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.239
  • R-Value Work: 0.188
  • Space Group: P 31 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 86.81 α = 90.00
b = 86.81 β = 90.00
c = 156.07 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-12-17
  • Released Date: 2003-06-03
  • Deposition author(s): Kobayashi, T., Nureki, O., Ishitani, R., Tukalo, M., Cusack, S., Sakamoto, K., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History

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