2ZI0 Gene Regulation Rna date Feb 12, 2008
title Crystal Structure Of Tav2bsirna Complex
authors Y.A.Yuan, H.Y.Chen
compound source
Molecule: Protein 2b
Chain: A, B
Fragment: Unp Residues 1-69
Synonym: Tav2b
Engineered: Yes
Organism_scientific: Tomato Aspermy Virus
Organism_common: Tav
Organism_taxid: 12315
Gene: Rna4a
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28b

Molecule: Rna (5'- D(Papgpapcpapgpcpapupupapupgpcpupgpupcpu 3');
Chain: C, D
Synonym: Sirna
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 21 21 2
R_factor 0.214 R_Free 0.276
crystal
cell
length a length b length c angle alpha angle beta angle gamma
86.455 122.043 28.193 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.82 Å
ligand MSE enzyme
note 2ZI0 is a representative structure
Primary referenceStructural basis for RNA-silencing suppression by Tomato aspermy virus protein 2b., Chen HY, Yang J, Lin C, Yuan YA, EMBO Rep. 2008 Jul 4;. PMID:18600235
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (41 Kb) [Save to disk]
  • Biological Unit Coordinates (2zi0.pdb1.gz) 37 Kb
  • Biological Unit Coordinates (2zi0.pdb2.gz) 72 Kb
  • LPC: Ligand-Protein Contacts for 2ZI0
  • CSU: Contacts of Structural Units for 2ZI0
  • Likely Quarternary Molecular Structure file(s) for 2ZI0
  • Structure Factors (114 Kb)
  • Retrieve 2ZI0 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2ZI0 from S2C, [Save to disk]
  • Re-refined 2zi0 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2ZI0 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 2ZI0
  • 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 2ZI0, from MSDmotif at EBI
  • Fold representative 2zi0 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2zi0_B] [2zi0_A] [2zi0] [2zi0_C] [2zi0_D]
  • SWISS-PROT database: [Q8UYT3]
  • Domain organization of [ORF2B_TAV] by SWISSPFAM
  • Other resources with information on 2ZI0
  • Community annotation for 2ZI0 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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