1G59 Ligase Rna date Oct 31, 2000
title Glutamyl-Trna Synthetase Complexed With Trna(Glu).
authors S.Sekine, O.Nureki, A.Shimada, D.G.Vassylyev, S.Yokoyama, Riken S Genomicsproteomics Initiative (Rsgi)
compound source
Molecule: Trna(Glu)
Chain: B, D
Engineered: Yes
 Synthetic: Yes

Molecule: Glutamyl-Trna Synthetase
Chain: A, C
Ec: 6.1.1.17
Engineered: Yes
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pk7
symmetry Space Group: C 2 2 21
R_factor 0.218 R_Free 0.298
crystal
cell
length a length b length c angle alpha angle beta angle gamma
109.980 218.670 134.670 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand
enzyme Ligase E.C.6.1.1.17 BRENDA
related structures by homologous chain: 1GLN, 1N77
Gene
Ontology
ChainFunctionProcessComponent
A, C


Primary referenceStructural basis for anticodon recognition by discriminating glutamyl-tRNA synthetase., Sekine S, Nureki O, Shimada A, Vassylyev DG, Yokoyama S, Nat Struct Biol 2001 Mar;8(3):203-6. PMID:11224561
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (223 Kb) [Save to disk]
  • Biological Unit Coordinates (1g59.pdb1.gz) 110 Kb
  • Biological Unit Coordinates (1g59.pdb2.gz) 110 Kb
  • CSU: Contacts of Structural Units for 1G59
  • Likely Quarternary Molecular Structure file(s) for 1G59
  • Structure Factors (334 Kb)
  • Retrieve 1G59 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1G59 from S2C, [Save to disk]
  • Re-refined 1g59 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1G59 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 1G59
  • 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 1G59, from MSDmotif at EBI
  • Structure summary from SCOR (Structural Classification of RNA)
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1g59a2, region A:1-305 [Jmol] [rasmolscript] [script source]
        - Domain d1g59a1, region A:306-468 [Jmol] [rasmolscript] [script source]
        - Domain d1g59c2, region C:1-305 [Jmol] [rasmolscript] [script source]
        - Domain d1g59c1, region C:306-468 [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: [1g59_A] [1g59_C] [1g59] [1g59_B] [1g59_D]
  • SWISS-PROT database: [P27000]
  • Domain organization of [SYE_THET8] by SWISSPFAM
    • Other resources with information on 1G59
  • Community annotation for 1G59 at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Domain movements in 1G59 from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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