1X8W Rna date Aug 18, 2004
title Structure Of The Tetrahymena Ribozyme: Base Triple Sandwich Ion At The Active Site
authors F.Guo, A.R.Gooding, T.R.Cech
compound source
Molecule: Tetrahymena Ribozyme Rna
Chain: A, B, C, D
Engineered: Yes
Mutation: Yes
Other_details: Group I Intron In Large Ribosomal Rna Subuni
Synthetic: Yes
Other_details: Rna Was Prepared By In Vitro Transcription. Sequence Of This Rna Can Be Found Naturally In Tetrahymena Thermophila.
symmetry Space Group: P 41 21 2
R_factor 0.263 R_Free 0.320
crystal
cell
length a length b length c angle alpha angle beta angle gamma
175.400 175.400 304.800 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.80 Å
ligand MG enzyme
Primary referenceStructure of the Tetrahymena ribozyme: base triple sandwich and metal ion at the active site., Guo F, Gooding AR, Cech TR, Mol Cell. 2004 Nov 5;16(3):351-62. PMID:15525509
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (358 Kb) [Save to disk]
  • Biological Unit Coordinates (1x8w.pdb1.gz) 89 Kb
  • Biological Unit Coordinates (1x8w.pdb2.gz) 91 Kb
  • Biological Unit Coordinates (1x8w.pdb3.gz) 87 Kb
  • Biological Unit Coordinates (1x8w.pdb4.gz) 90 Kb
  • LPC: Ligand-Protein Contacts for 1X8W
  • CSU: Contacts of Structural Units for 1X8W
  • Likely Quarternary Molecular Structure file(s) for 1X8W
  • Structure Factors (401 Kb)
  • Retrieve 1X8W in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1X8W from S2C, [Save to disk]
  • Re-refined 1x8w structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1X8W 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 1X8W
  • 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 1X8W, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1x8w_D] [1x8w] [1x8w_C] [1x8w_B] [1x8w_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 1X8W
  • Community annotation for 1X8W 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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