2D3O Ribosome date Sep 30, 2005
title Structure Of Ribosome Binding Domain Of The Trigger Factor O Ribosomal Subunit From D. Radiodurans
authors F.Schluenzen, D.N.Wilson, H.A.Hansen, P.Tian, J.M.Harms, S.J.Mcin R.Albrecht, J.Buerger, S.M.Wilbanks, P.Fucini
compound source
Molecule: 23s Ribosomal Rna
Chain
Organism_scientific: Deinococcus Radiodurans
Organism_taxid: 1299

Molecule: 50s Ribosomal Protein L23
Chain: R

Organism_scientific: Deinococcus Radiodurans
Organism_taxid: 1299

Molecule: 50s Ribosomal Protein L24
Chain: S

Organism_scientific: Deinococcus Radiodurans
Organism_taxid: 1299

Molecule: 50s Ribosomal Protein L29
Chain: W

Organism_scientific: Deinococcus Radiodurans
Organism_taxid: 1299

Molecule: Trigger Factor
Chain: 1
Fragment: Ribosome Binding Domain
Synonym: Tf
Engineered: Yes

Organism_scientific: Deinococcus Radiodurans
Organism_taxid: 1299
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: I 2 2 2
R_factor 0.299 R_Free 0.322
crystal
cell
length a length b length c angle alpha angle beta angle gamma
169.500 410.500 695.200 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.35 Å
Gene
Ontology
ChainFunctionProcessComponent
1


R


S


W


Primary referenceThe binding mode of the trigger factor on the ribosome: implications for protein folding and SRP interaction., Schlunzen F, Wilson DN, Tian P, Harms JM, McInnes SJ, Hansen HA, Albrecht R, Buerger J, Wilbanks SM, Fucini P, Structure (Camb) 2005 Nov;13(11):1685-94. PMID:16271892
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1087 Kb) [Save to disk]
  • Biological Unit Coordinates (2d3o.pdb1.gz) 1081 Kb
  • CSU: Contacts of Structural Units for 2D3O
  • Likely Quarternary Molecular Structure file(s) for 2D3O
  • Retrieve 2D3O in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2D3O from S2C, [Save to disk]
  • View 2D3O 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 2D3O
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2D3O, from MSDmotif at EBI
  • Fold representative 2d3o from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2d3o] [2d3o_W] [2d3o_R] [2d3o_0] [2d3o_1] [2d3o_S]
  • SWISS-PROT database: [Q9RXK0] [Q9RXJ1] [Q9RXJ4] [Q9RT21]
  • Domain organization of [RL23_DEIRA] [RL24_DEIRA] [RL29_DEIRA] [TIG_DEIRA] by SWISSPFAM
  • Domain found in 2D3O: [KOW ] by SMART
  • Other resources with information on 2D3O
  • Community annotation for 2D3O 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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