3VRS Rna date Apr 13, 2012
title Crystal Structure Of Fluoride Riboswitch, Soaked In Mn2+
authors A.M.Ren, K.R.Rajashankar, D.J.Patel
compound source
Molecule: Fluoride Riboswitch
Chain: A
Engineered: Yes
Synthetic: Yes
Organism_scientific: Thermotoga Petrophila
Organism_taxid: 93929
Other_details: Rna Was Prepared By In Vitro Transcription W Rna Polymerase.
symmetry Space Group: P 21 21 2
R_factor 0.220 R_Free 0.262
crystal
cell
length a length b length c angle alpha angle beta angle gamma
57.846 77.203 42.094 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.60 Å
ligand F, K, MN enzyme
Primary referenceFluoride ion encapsulation by Mg2+ ions and phosphates in a fluoride riboswitch., Ren A, Rajashankar KR, Patel DJ, Nature. 2012 May 13;486(7401):85-9. doi: 10.1038/nature11152. PMID:22678284
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (28 Kb) [Save to disk]
  • Biological Unit Coordinates (3vrs.pdb1.gz) 23 Kb
  • LPC: Ligand-Protein Contacts for 3VRS
  • CSU: Contacts of Structural Units for 3VRS
  • Structure Factors (178 Kb)
  • Retrieve 3VRS in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3VRS from S2C, [Save to disk]
  • Re-refined 3vrs structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3VRS 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 3VRS
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3VRS, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3vrs] [3vrs_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3VRS
  • Community annotation for 3VRS at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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