1Y0Q Rna date Nov 16, 2004
title Crystal Structure Of An Active Group I Ribozyme-Product Comp
authors B.L.Golden, H.Kim, E.Chase
compound source
Molecule: Group I Ribozyme
Chain: A
Fragment: Orf142-I2 Intron
Engineered: Yes
 Organism_scientific: Staphylococcus Phage Twort
Organism_taxid: 55510
Gene: Orf142-I2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Xl-1 Blue
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Puc-19

Molecule: 5'-R(Gpcpupu)-3'
Chain: B
Fragment: 5'-Exon
Engineered: Yes
Synthetic: Yes
Other_details: Chemically Synthesized Rna Oligonucleotide
symmetry Space Group: I 21 21 21
R_factor 0.277 R_Free 0.310
crystal
cell
length a length b length c angle alpha angle beta angle gamma
94.570 140.970 210.850 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.60 Å
ligand MG, SO4, SPK enzyme
Primary referenceCrystal structure of a phage Twort group I ribozyme-product complex., Golden BL, Kim H, Chase E, Nat Struct Mol Biol 2004 Dec 5;. PMID:15580277
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (91 Kb) [Save to disk]
  • Biological Unit Coordinates (1y0q.pdb1.gz) 86 Kb
  • LPC: Ligand-Protein Contacts for 1Y0Q
  • CSU: Contacts of Structural Units for 1Y0Q
  • Likely Quarternary Molecular Structure file(s) for 1Y0Q
  • Structure Factors (236 Kb)
  • Retrieve 1Y0Q in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1Y0Q from S2C, [Save to disk]
  • Re-refined 1y0q structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1Y0Q 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 1Y0Q
  • 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 1Y0Q, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1y0q_A] [1y0q] [1y0q_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 1Y0Q
  • Community annotation for 1Y0Q 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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