5JBJ Immune System date Apr 13, 2016
title Crystal Structure Of Chicken Lgp2 With 5'P 12-Mer Dsrna At 3 Resolution
authors S.Cusack, E.Uchikawa, M.Lethier
compound source
Molecule: Lgp2
Chain: A
Engineered: Yes
Mutation: Yes
Organism_scientific: Gallus Gallus
Organism_common: Chicken
Organism_taxid: 9031
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_variant: Rosetta 2

Molecule: Rna (5'-R(Pgpgpupapgpcpgpcpupapcpc)-3
Chain: X, Y
Engineered: Yes
Other_details: Synthetic Rna 5 Prime Mono Phosphate

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 64
R_factor 0.253 R_Free 0.319
crystal
cell
length a length b length c angle alpha angle beta angle gamma
90.090 90.090 196.730 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.58 Å
ligand ZN enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural Analysis of dsRNA Binding to Anti-viral Pattern Recognition Receptors LGP2 and MDA5., Uchikawa E, Lethier M, Malet H, Brunel J, Gerlier D, Cusack S, Mol Cell. 2016 May 19;62(4):586-602. doi: 10.1016/j.molcel.2016.04.021. PMID:27203181
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (118 Kb) [Save to disk]
  • Biological Unit Coordinates (5jbj.pdb1.gz) 113 Kb
  • LPC: Ligand-Protein Contacts for 5JBJ
  • CSU: Contacts of Structural Units for 5JBJ
  • Structure Factors (305 Kb)
  • Retrieve 5JBJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5JBJ from S2C, [Save to disk]
  • Re-refined 5jbj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5JBJ 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 5JBJ
  • 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
  • Fold representative 5jbj from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5jbj_X] [5jbj_A] [5jbj_Y] [5jbj]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5JBJ: [DEXDc] [HELICc ] by SMART
  • Other resources with information on 5JBJ
  • Community annotation for 5JBJ at PDBWiki (http://pdbwiki.org)

  • 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