1IS1 Translation date Nov 05, 2001
title Crystal Structure Of Ribosome Recycling Factor From Vibrio Parahaemolyticus
authors H.Nakano, Y.Yamaichi, S.Uchiyama, T.Yoshida, K.Nishina, H.Kato, T. T.Honda, Y.Yamagata, Y.Kobayashi
compound source
Molecule: Ribosome Recycling Factor
Chain: A
Engineered: Yes
 Organism_scientific: Vibrio Parahaemolyticus
Organism_taxid: 670
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22b
symmetry Space Group: H 3 2
R_factor 0.203 R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
84.799 84.799 142.727 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.20 Å
note 1IS1 is a representative structure
related structures by homologous chain: 1ISE
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructure and binding mode of a ribosome recycling factor (RRF) from mesophilic bacterium., Nakano H, Yoshida T, Uchiyama S, Kawachi M, Matsuo H, Kato T, Ohshima A, Yamaichi Y, Honda T, Kato H, Yamagata Y, Ohkubo T, Kobayashi Y, J Biol Chem 2003 Jan 31;278(5):3427-36. Epub 2002 Oct 30. PMID:12411440
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (37 Kb) [Save to disk]
  • Biological Unit Coordinates (1is1.pdb1.gz) 33 Kb
  • CSU: Contacts of Structural Units for 1IS1
  • Likely Quarternary Molecular Structure file(s) for 1IS1
  • Structure Factors (94 Kb)
  • Retrieve 1IS1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1IS1 from S2C, [Save to disk]
  • Re-refined 1is1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1IS1 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 1IS1
  • 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 1IS1, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1is1a_, region A [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1is1] [1is1_A]
  • SWISS-PROT database: [Q8GRF5]
  • Domain organization of [RRF_VIBPA] by SWISSPFAM
    • Other resources with information on 1IS1
  • Community annotation for 1IS1 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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