2F8K Rna Binding Protein Rna date Dec 02, 2005
title Sequence Specific Recognition Of Rna Hairpins By The Sam Dom Vts1
authors T.Aviv, Z.Lin, G.Ben-Ari, C.A.Smibert, F.Sicheri
compound source
Molecule: 5'-R(Upapapupcpupupupgpapcpapgpapu
Chain: B
Engineered: Yes
Other_details: Sre23
Synthetic: Yes

Molecule: Protein Vts1
Chain: A
Synonym: Vti1-2 Suppressor Protein 1
Engineered: Yes

Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Gene: Vts1
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex
symmetry Space Group: P 21 21 21
R_factor 0.228 R_Free 0.277
crystal
cell
length a length b length c angle alpha angle beta angle gamma
27.550 44.530 129.230 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceSequence-specific recognition of RNA hairpins by the SAM domain of Vts1p., Aviv T, Lin Z, Ben-Ari G, Smibert CA, Sicheri F, Nat Struct Mol Biol. 2006 Feb;13(2):168-176. Epub 2006 Jan 22. PMID:16429151
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (27 Kb) [Save to disk]
  • Biological Unit Coordinates (2f8k.pdb1.gz) 22 Kb
  • CSU: Contacts of Structural Units for 2F8K
  • Likely Quarternary Molecular Structure file(s) for 2F8K
  • Structure Factors (82 Kb)
  • Retrieve 2F8K in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2F8K from S2C, [Save to disk]
  • Re-refined 2f8k structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2F8K 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 2F8K
  • 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 2F8K, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2f8k] [2f8k_B] [2f8k_A]
  • SWISS-PROT database: [Q08831]
  • Belongs to the synaptosomal vesicle fusion pore (svf-pore) family according to TCDB.
  • Domain organization of [VTS1_YEAST] by SWISSPFAM
  • Domain found in 2F8K: [SAM ] by SMART
  • Other resources with information on 2F8K
  • Community annotation for 2F8K 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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