1T1M Ribosome date Apr 16, 2004
title Binding Position Of Ribosome Recycling Factor (Rrf) On The E. Coli 70s Ribosome
authors R.K.Agrawal, M.R.Sharma, M.C.Kiel, G.Hirokawa, T.M.Booth, C.M.Spahn, R.A.Grassucci, A.Kaji, J.Frank
compound source
Molecule: Dodecamer Fragment Of Double Helix From 23s Rrna
Chain: A
Fragment: Apical Loop Of Helix 43
Other_details: Fitted Into The Cryo-Em Map Of The 70s Ribosome;
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Strain: Mre600

Molecule: 42-Mer Fragment Of Double Helix From 16s Rrna
Chain: B
Fragment: Top Portion Of Helix 44
Other_details: Fitted Into The Cryo-Em Map Of The 70s Ribosome;

Organism_scientific: Escherichia Coli
Organism_taxid: 562
Strain: Mre600

Molecule: Ribosome Recycling Factor
Chain: C
Synonym: Ribosome Releasing Factor; Rrf
Other_details: Fitted Into The Cryo-Em Map Of The 70s Ribosome

Organism_scientific: Escherichia Coli
Organism_taxid: 562
Strain: Mre600
Other_details: Sequence Taken From Thermotoga Maritima
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 12.00 Å
Gene
Ontology
ChainFunctionProcessComponent
C


Primary referenceVisualization of ribosome-recycling factor on the Escherichia coli 70S ribosome: functional implications., Agrawal RK, Sharma MR, Kiel MC, Hirokawa G, Booth TM, Spahn CM, Grassucci RA, Kaji A, Frank J, Proc Natl Acad Sci U S A 2004 Jun 15;101(24):8900-5. Epub 2004 Jun 3. PMID:15178758
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (9 Kb) [Save to disk]
  • Biological Unit Coordinates (1t1m.pdb1.gz) 6 Kb
  • CSU: Contacts of Structural Units for 1T1M
  • Likely Quarternary Molecular Structure file(s) for 1T1M
  • Retrieve 1T1M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1T1M from S2C, [Save to disk]
  • View 1T1M 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 1T1M
  • 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 1T1M, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1t1ma_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1t1mb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1t1mc_, region C [Jmol] [rasmolscript] [script source]
  • Fold representative 1t1m from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1t1m_C] [1t1m_A] [1t1m] [1t1m_B]
  • SWISS-PROT database: [P84154]
  • Domain organization of [P84154_ECOLX] by SWISSPFAM
  • Other resources with information on 1T1M
  • Community annotation for 1T1M 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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