1Y26 Rna date Nov 20, 2004
title A-Riboswitch-Adenine Complex
authors A.Serganov, Y.R.Yuan, D.J.Patel
compound source
Molecule: Vibrio Vulnificus A-Riboswitch
Chain: X
Fragment: Sequence Database Residues 202511-202580
Synonym: A-Riboswitch-Adenine Complex
Engineered: Yes
Organism_scientific: Vibrio Vulnificus
Organism_taxid: 672
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Xl1-Blue
Expression_system_vector_type: Vector
Expression_system_vector: Put7
Other_details: In Vitro Translation
symmetry Space Group: P 21 21 2
R_factor 0.231 R_Free 0.297
crystal
cell
length a length b length c angle alpha angle beta angle gamma
49.655 155.036 25.185 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand ADE, MG enzyme
note 1Y26 (Molecule of the Month:pdb130)
Primary referenceStructural Basis for Discriminative Regulation of Gene Expression by Adenine- and Guanine-Sensing mRNAs., Serganov A, Yuan YR, Pikovskaya O, Polonskaia A, Malinina L, Phan AT, Hobartner C, Micura R, Breaker RR, Patel DJ, Chem Biol 2004 Dec;11(12):1729-41. PMID:15610857
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (37 Kb) [Save to disk]
  • Biological Unit Coordinates (1y26.pdb1.gz) 31 Kb
  • LPC: Ligand-Protein Contacts for 1Y26
  • CSU: Contacts of Structural Units for 1Y26
  • Likely Quarternary Molecular Structure file(s) for 1Y26
  • Structure Factors (169 Kb)
  • Retrieve 1Y26 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1Y26 from S2C, [Save to disk]
  • Re-refined 1y26 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1Y26 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 1Y26
  • 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 1Y26, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1y26] [1y26_X]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 1Y26
  • Community annotation for 1Y26 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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