5JAJ Rna Binding Protein date Apr 12, 2016
title Structure Of Chicken Lgp2 Witha 5'P 10-Mer Dsrna And Adp-Alf
authors S.Cusack, E.Uchikawa
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
Expression_system_plasmid: Petm11sumo

Molecule: Rna (5'-R(Pgpgpupapcpgpupapcpcpc)-3')
Chain: X
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Rna (5'-R(Pgpgpupapcpgpupapcpc)-3')
Chain: Y
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 21 21 21
R_factor 0.133 R_Free 0.168
crystal
cell
length a length b length c angle alpha angle beta angle gamma
69.590 97.050 122.520 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.50 Å
ligand ADP, ALF, EDO, MG, MGF, 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] (282 Kb) [Save to disk]
  • Biological Unit Coordinates (5jaj.pdb1.gz) 276 Kb
  • LPC: Ligand-Protein Contacts for 5JAJ
  • CSU: Contacts of Structural Units for 5JAJ
  • Structure Factors (2436 Kb)
  • Retrieve 5JAJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5JAJ from S2C, [Save to disk]
  • Re-refined 5jaj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5JAJ 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 5JAJ
  • 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
  • Fold representative 5jaj from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5jaj_Y] [5jaj] [5jaj_A] [5jaj_X]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5JAJ: [DEXDc] [HELICc ] by SMART
  • Other resources with information on 5JAJ
  • Community annotation for 5JAJ at PDBWiki (http://pdbwiki.org)

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