1QDE Gene Regulation date May 20, 1999
title Crystal Structure Of The Atpase Domain Of Translation Initiation Factor 4a From Saccharomyces Cerevisiae-The Prototype Of The Dead Box Protein Family
authors J.Benz, H.Trachsel, U.Baumann
compound source
Molecule: Translation Initiation Factor 4a
Chain: A
Fragment: N-Terminal Domain, Residues 9-232
Synonym: Eif4a
Engineered: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pqe30
symmetry Space Group: P 21 21 21
R_factor 0.214 R_Free 0.266
crystal
cell
length a length b length c angle alpha angle beta angle gamma
38.880 59.280 92.050 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand SO4 enzyme
related structures by homologous chain: 1QVA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceCrystal structure of the ATPase domain of translation initiation factor 4A from Saccharomyces cerevisiae--the prototype of the DEAD box protein family., Benz J, Trachsel H, Baumann U, Structure Fold Des 1999 Jun 15;7(6):671-9. PMID:10404596
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (37 Kb) [Save to disk]
  • Biological Unit Coordinates (1qde.pdb1.gz) 34 Kb
  • LPC: Ligand-Protein Contacts for 1QDE
  • CSU: Contacts of Structural Units for 1QDE
  • Likely Quarternary Molecular Structure file(s) for 1QDE
  • Retrieve 1QDE in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1QDE from S2C, [Save to disk]
  • View 1QDE 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 1QDE
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1QDE, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1qdea_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1qde from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [1qde] [1qde_A]
  • SWISS-PROT database: [P10081]
  • Domain organization of [IF4A_YEAST] by SWISSPFAM
  • Domain found in 1QDE: [DEXDc ] by SMART
  • Other resources with information on 1QDE
  • Community annotation for 1QDE 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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