1RPU Rna Binding Protein Rna date Dec 03, 2003
title Crystal Structure Of Cirv P19 Bound To Sirna
authors J.M.Vargason, G.Szittya, J.Burgyan, T.M.T.Hall
compound source
Molecule: 5'-R(Pcpgpupapcpgpcpgpupcpapcpgpcp Pgpupu)-3';
Chain: C, D
Engineered: Yes
Synthetic: Yes
Other_details: Synthesized By Dharmacon

Molecule: 19 Kda Protein
Chain: A, B
Engineered: Yes

Organism_scientific: Carnation Italian Ringspot Virus
Organism_taxid: 39443
Gene: P19
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex2t
symmetry Space Group: P 61 2 2
R_factor 0.224 R_Free 0.289
crystal
cell
length a length b length c angle alpha angle beta angle gamma
115.400 115.400 128.200 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.50 Å
related structures by homologous chain: 1R9F
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceSize selective recognition of siRNA by an RNA silencing suppressor., Vargason JM, Szittya G, Burgyan J, Tanaka Hall TM, Cell 2003 Dec 26;115(7):799-811. PMID:14697199
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (86 Kb) [Save to disk]
  • Biological Unit Coordinates (1rpu.pdb1.gz) 82 Kb
  • CSU: Contacts of Structural Units for 1RPU
  • Likely Quarternary Molecular Structure file(s) for 1RPU
  • Structure Factors (220 Kb)
  • Retrieve 1RPU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1RPU from S2C, [Save to disk]
  • Re-refined 1rpu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1RPU 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 1RPU
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1RPU, from MSDmotif at EBI
  • Structure summary from SCOR (Structural Classification of RNA)
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1rpua_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1rpub_, region B [Jmol] [rasmolscript] [script source]
  • Fold representative 1rpu from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1rpu_C] [1rpu_D] [1rpu] [1rpu_B] [1rpu_A]
  • SWISS-PROT database: [Q66104]
  • Domain organization of [VP19_CIRV] by SWISSPFAM
  • Other resources with information on 1RPU
  • Community annotation for 1RPU 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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