1OBC Synthetase date Jan 30, 2003
title Leucyl-Trna Synthetase From Thermus Thermophilus Complexed W Post-Transfer Editing Substrate Analogue
authors S.Cusack, A.Yaremchuk, M.Tukalo
compound source
Molecule: Leucyl-Trna Synthetase
Chain: A
Engineered: Yes
Other_details: Enzyme Contains 878 Residues And Two Zinc At
 Organism_scientific: Thermus Thermophilus
Organism_taxid: 262724
Strain: Hb27
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
symmetry Space Group: C 2 2 21
R_factor 0.193 R_Free 0.225
crystal
cell
length a length b length c angle alpha angle beta angle gamma
101.896 154.810 175.118 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand 2AD, LEU, LMS, NVA, ZN enzyme
related structures by homologous chain: 1H3N, 1OBH
Gene
Ontology
ChainFunctionProcessComponent
A
  • aminoacyl-tRNA editing activ...


    • Primary referenceStructural and mechanistic basis of pre- and posttransfer editing by leucyl-tRNA synthetase., Lincecum TL Jr, Tukalo M, Yaremchuk A, Mursinna RS, Williams AM, Sproat BS, Van Den Eynde W, Link A, Van Calenbergh S, Grotli M, Martinis SA, Cusack S, Mol Cell 2003 Apr;11(4):951-63. PMID:12718881
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (148 Kb) [Save to disk]
  • Biological Unit Coordinates (1obc.pdb1.gz) 143 Kb
  • LPC: Ligand-Protein Contacts for 1OBC
  • CSU: Contacts of Structural Units for 1OBC
  • Likely Quarternary Molecular Structure file(s) for 1OBC
  • Structure Factors (666 Kb)
  • Retrieve 1OBC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1OBC from S2C, [Save to disk]
  • Re-refined 1obc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1OBC 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 1OBC
  • 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 1OBC, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1obca3, region A:1-225,A:418-686 [Jmol] [rasmolscript] [script source]
        - Domain d1obca2, region A:226-417 [Jmol] [rasmolscript] [script source]
        - Domain d1obca1, region A:687-814 [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1obc] [1obc_A]
  • SWISS-PROT database: [Q72GM3]
  • Domain organization of [Q72GM3_THET2] by SWISSPFAM
    • Other resources with information on 1OBC
  • Community annotation for 1OBC at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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