1OND Ribosome date Feb 27, 2003
title The Crystal Structure Of The 50s Large Ribosomal Subunit Fro Deinococcus Radiodurans Complexed With Troleandomycin Macro Antibiotic
authors R.Berisio, F.Schluenzen, J.Harms, A.Bashan, T.Auerbach, D.Baram, A
compound source
Molecule: 23s Ribosomal Rna
Chain
 Organism_scientific: Deinococcus Radiodurans
Organism_taxid: 1299

Molecule: 50s Ribosomal Protein L22
Chain: Q
Organism_scientific: Deinococcus Radiodurans
Organism_taxid: 1299

Molecule: 50s Ribosomal Protein L32
Chain: Z
Organism_scientific: Deinococcus Radiodurans
Organism_taxid: 1299
symmetry Space Group: I 2 2 2
R_factor 0.261 R_Free 0.310
crystal
cell
length a length b length c angle alpha angle beta angle gamma
170.250 411.090 695.340 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.40 Å
ligand TAO enzyme
Gene
Ontology
ChainFunctionProcessComponent
Q


Z


Primary referenceStructural insight into the role of the ribosomal tunnel in cellular regulation., Berisio R, Schluenzen F, Harms J, Bashan A, Auerbach T, Baram D, Yonath A, Nat Struct Biol 2003 May;10(5):366-70. PMID:12665853
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1004 Kb) [Save to disk]
  • Biological Unit Coordinates (1ond.pdb1.gz) 998 Kb
  • LPC: Ligand-Protein Contacts for 1OND
  • CSU: Contacts of Structural Units for 1OND
  • Likely Quarternary Molecular Structure file(s) for 1OND
  • Structure Factors (3202 Kb)
  • Retrieve 1OND in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1OND from S2C, [Save to disk]
  • Re-refined 1ond structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1OND 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 1OND
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1OND, from MSDmotif at EBI
  • Structure summary from SCOR (Structural Classification of RNA)
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ond0_, region 0 [Jmol] [rasmolscript] [script source]
        - Domain d1ondq_, region Q [Jmol] [rasmolscript] [script source]
        - Domain d1ondz_, region Z [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ond] [1ond_Q] [1ond_Z] [1ond_0]
  • SWISS-PROT database: [Q9RXJ7] [P49228]
  • Domain organization of [RL22_DEIRA] [RL32_DEIRA] by SWISSPFAM
    • Other resources with information on 1OND
  • Community annotation for 1OND 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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