2IY3 Rna-Binding date Jul 12, 2006
title Structure Of The E. Coli Signal Regognition Particle
authors C.Schaffitzel, M.Oswald, I.Berger, T.Ishikawa, J.P.Abrahams, H.K. R.I.Koning, N.Ban
compound source
Molecule: Signal Recognition Particle Protein,Signal Recogn Particle 54 Kda Protein;
Chain: A
Synonym: Fifty-Four Homolog,Srp54
Engineered: Yes
Organism_scientific: Thermus Aquaticus, Sulfolobus Solfatar
Organism_taxid: 271, 2287
Gene: Ffh, Srp54, Sula_1982, Sulb_1983, Sulc_1981
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_plasmid: Pet24a_ffh

Molecule: 4.5s Rna
Chain: B
Engineered: Yes

Synthetic: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562

Molecule: Signal Sequence
Chain: C
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 1
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 16.00 Å

Primary referenceStructure of the E. coli signal recognition particle bound to a translating ribosome., Schaffitzel C, Oswald M, Berger I, Ishikawa T, Abrahams JP, Koerten HK, Koning RI, Ban N, Nature. 2006 Nov 23;444(7118):503-6. Epub 2006 Oct 29. PMID:17086205
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (15 Kb) [Save to disk]
  • Biological Unit Coordinates (2iy3.pdb1.gz) 12 Kb
  • CSU: Contacts of Structural Units for 2IY3
  • Likely Quarternary Molecular Structure file(s) for 2IY3
  • Retrieve 2IY3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2IY3 from S2C, [Save to disk]
  • View 2IY3 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 2IY3
  • 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 2IY3, from MSDmotif at EBI
  • Fold representative 2iy3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2iy3] [2iy3_B] [2iy3_C] [2iy3_A]
  • SWISS-PROT database: [Q97ZE7] [O07347]
  • Domain organization of [SRP54_SULSO] [SRP54_THEAQ] by SWISSPFAM
  • Domains found in 2IY3: [AAA] [SRP54] [SRP54_N ] by SMART
  • Other resources with information on 2IY3
  • Community annotation for 2IY3 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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