1O5T Ligase date Oct 05, 2003
title Crystal Structure Of The Aminoacylation Catalytic Fragment O Tryptophanyl-Trna Synthetase
authors Y.Yu, Y.Liu, N.Shen, X.Xu, J.Jia, Y.Jin, E.Arnold, J.Ding
compound source
Molecule: Tryptophanyl-Trna Synthetase
Chain: A
Fragment: Aminoacylation Catalytic Fragment
Synonym: Tryptophan--Trna Ligase, Trprs, Ifp53, Hwrs
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3) Codon-Plus
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet24a(+)
symmetry Space Group: P 65 2 2
R_factor 0.245 R_Free 0.296
length a length b length c angle alpha angle beta angle gamma
82.240 82.240 263.560 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.50 Å
enzyme Ligase E.C. BRENDA
related structures by homologous chain: 1ULH

Primary referenceCrystal structure of human tryptophanyl-tRNA synthetase catalytic fragment: insights into substrate recognition, tRNA binding, and angiogenesis activity., Yu Y, Liu Y, Shen N, Xu X, Xu F, Jia J, Jin Y, Arnold E, Ding J, J Biol Chem 2004 Feb 27;279(9):8378-88. Epub 2003 Dec 5. PMID:14660560
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (69 Kb) [Save to disk]
  • Biological Unit Coordinates (1o5t.pdb1.gz) 128 Kb
  • CSU: Contacts of Structural Units for 1O5T
  • Likely Quarternary Molecular Structure file(s) for 1O5T
  • Structure Factors (155 Kb)
  • Retrieve 1O5T in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1O5T from S2C, [Save to disk]
  • Re-refined 1o5t structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1O5T 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 1O5T
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1O5T, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1o5ta_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1o5t from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1o5t_A] [1o5t]
  • SWISS-PROT database: [P23381]
  • Domain organization of [SYWC_HUMAN] by SWISSPFAM
  • Other resources with information on 1O5T
  • Community annotation for 1O5T at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014
    Bioinformatics Unit
    Weizmann Institute of Science