2BYT Synthetase date Aug 04, 2005
title Thermus Thermophilus Leucyl-Trna Synthetase Complexed With A Transcript In The Post-Editing Conformation
authors S.Cusack, M.Tukalo, A.Yaremchuk, R.Fukunaga, S.Yokoyama
compound source
Molecule: Leucyl-Trna Synthetase
Chain: A, D
Engineered: Yes
 Organism_scientific: Thermus Thermophilus
Organism_taxid: 274
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)

Molecule: Trnaleu Transcript With Anticodon Cag
Chain: B, E
Engineered: Yes
Synthetic: Yes
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274
symmetry Space Group: C 1 2 1
R_factor 0.243 R_Free 0.282
crystal
cell
length a length b length c angle alpha angle beta angle gamma
203.869 125.578 172.979 90.00 118.44 90.00
method X-Ray Diffractionresolution 3.30 Å
ligand HG, LEU, SO4, ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D
  • aminoacyl-tRNA editing activ...


    • Primary referenceThe crystal structure of leucyl-tRNA synthetase complexed with tRNALeu in the post-transfer-editing conformation., Tukalo M, Yaremchuk A, Fukunaga R, Yokoyama S, Cusack S, Nat Struct Mol Biol. 2005 Oct;12(10):923-30. Epub 2005 Sep 11. PMID:16155583
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (357 Kb) [Save to disk]
  • Biological Unit Coordinates (2byt.pdb1.gz) 179 Kb
  • Biological Unit Coordinates (2byt.pdb2.gz) 178 Kb
  • LPC: Ligand-Protein Contacts for 2BYT
  • CSU: Contacts of Structural Units for 2BYT
  • Likely Quarternary Molecular Structure file(s) for 2BYT
  • Structure Factors (542 Kb)
  • Retrieve 2BYT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2BYT from S2C, [Save to disk]
  • Re-refined 2byt structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2BYT in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 2BYT
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2BYT, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2byt_A] [2byt] [2byt_D] [2byt_B] [2byt_E]
  • SWISS-PROT database: [Q7SIE4]
  • Domain organization of [Q7SIE4_THETH] by SWISSPFAM
    • Other resources with information on 2BYT
  • Community annotation for 2BYT at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
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  • Images from IMB Jena Image Library of Biological Macromolecules.

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