3FU2 Rna date Jan 13, 2009
title Cocrystal Structure Of A Class-I Preq1 Riboswitch
authors D.J.Klein, T.E.Edwards, A.R.Ferre-D'Amare
compound source
Molecule: Preq1 Riboswitch
Chain: A, B, C
Engineered: Yes
 Synthetic: Yes
Other_details: Chemically Synthesized Rna Corresponding To Natural Sequence From Bacillus Subtilis
symmetry Space Group: P 32 2 1
R_factor 0.214 R_Free 0.267
crystal
cell
length a length b length c angle alpha angle beta angle gamma
78.208 78.208 85.220 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.85 Å
ligand CA, PRF enzyme
Primary referenceCocrystal structure of a class I preQ1 riboswitch reveals a pseudoknot recognizing an essential hypermodified nucleobase., Klein DJ, Edwards TE, Ferre-D'Amare AR, Nat Struct Mol Biol. 2009 Mar;16(3):343-4. Epub 2009 Feb 22. PMID:19234468
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (45 Kb) [Save to disk]
  • Biological Unit Coordinates (3fu2.pdb1.gz) 14 Kb
  • Biological Unit Coordinates (3fu2.pdb2.gz) 14 Kb
  • Biological Unit Coordinates (3fu2.pdb3.gz) 14 Kb
  • LPC: Ligand-Protein Contacts for 3FU2
  • CSU: Contacts of Structural Units for 3FU2
  • Likely Quarternary Molecular Structure file(s) for 3FU2
  • Structure Factors (56 Kb)
  • Retrieve 3FU2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3FU2 from S2C, [Save to disk]
  • Re-refined 3fu2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3FU2 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 3FU2
  • 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
  • 3D motif for 3FU2, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3fu2] [3fu2_A] [3fu2_B] [3fu2_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 3FU2
  • Community annotation for 3FU2 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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