5DEA Rna Binding Protein Rna date Aug 25, 2015
title Crystal Structure Of The Complex Between Human Fmrp Rgg Moti Quadruplex Rna, Cesium Bound Form.
authors N.Vasilyev, A.Polonskaia, J.C.Darnell, R.B.Darnell, D.J.Patel, A.
compound source
Molecule: Sc1
Chain: A, C
Engineered: Yes
 Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Fragile X Mental Retardation Protein 1
Chain: B, D
Synonym: Protein Fmr-1
Engineered: Yes
Mutation: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 21 21 2
R_factor 0.202 R_Free 0.226
crystal
cell
length a length b length c angle alpha angle beta angle gamma
56.570 129.870 36.790 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand CS, K enzyme
Primary referenceCrystal structure reveals specific recognition of a G-quadruplex RNA by a beta-turn in the RGG motif of FMRP., Vasilyev N, Polonskaia A, Darnell JC, Darnell RB, Patel DJ, Serganov A, Proc Natl Acad Sci U S A. 2015 Sep 15. pii: 201515737. PMID:26374839
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (75 Kb) [Save to disk]
  • Biological Unit Coordinates (5dea.pdb1.gz) 35 Kb
  • Biological Unit Coordinates (5dea.pdb2.gz) 35 Kb
  • LPC: Ligand-Protein Contacts for 5DEA
  • CSU: Contacts of Structural Units for 5DEA
  • Structure Factors (72 Kb)
  • Retrieve 5DEA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5DEA from S2C, [Save to disk]
  • Re-refined 5dea structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5DEA 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 5DEA
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5dea_A] [5dea_D] [5dea_C] [5dea] [5dea_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5DEA
  • Community annotation for 5DEA at PDBWiki (http://pdbwiki.org)

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