5IZM Translation date Mar 25, 2016
title The Crystal Structure Of Human Eefsec In Complex With Gdpnp
authors M.Dobosz-Bartoszek, Z.Otwinowski, M.Simonovic
compound source
Molecule: Selenocysteine-Specific Elongation Factor
Chain: A, B
Synonym: Elongation Factor Sec,Eukaryotic Elongation Factor Selenocysteine-Trna-Specific;
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Eefsec, Selb
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 2 2 21
R_factor 0.235 R_Free 0.285
crystal
cell
length a length b length c angle alpha angle beta angle gamma
92.316 112.398 327.669 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.40 Å
ligand GNP, MN, MSE enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCrystal structures of the human elongation factor eEFSec suggest a non-canonical mechanism for selenocysteine incorporation., Dobosz-Bartoszek M, Pinkerton MH, Otwinowski Z, Chakravarthy S, Soll D, Copeland PR, Simonovic M, Nat Commun. 2016 Oct 6;7:12941. doi: 10.1038/ncomms12941. PMID:27708257
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (148 Kb) [Save to disk]
  • Biological Unit Coordinates (5izm.pdb1.gz) 68 Kb
  • Biological Unit Coordinates (5izm.pdb2.gz) 73 Kb
  • LPC: Ligand-Protein Contacts for 5IZM
  • CSU: Contacts of Structural Units for 5IZM
  • Structure Factors (347 Kb)
  • Retrieve 5IZM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5IZM from S2C, [Save to disk]
  • Re-refined 5izm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5IZM 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 5IZM
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5izm] [5izm_B] [5izm_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5IZM
  • Community annotation for 5IZM at PDBWiki (http://pdbwiki.org)

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