3JRV Viral Protein Protein Binding date Sep 09, 2009
title Structure Of Poxvirus K7 Protein In Complex With Rna Helicas
authors S.Oda, R.A.Khan
compound source
Molecule: Protein K7
Chain: A, B
Engineered: Yes
Organism_scientific: Vaccinia Virus Wr
Organism_common: Vacv
Organism_taxid: 10254
Strain: Western Reserve
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15

Molecule: Atp-Dependent Rna Helicase Ddx3x
Chain: C, D, E
Fragment: Ddx3, Unp Residues 71-90
Synonym: Dead Box Protein 3, X-Chromosomal, Helicase-Like P Hlp2, Dead Box, X Isoform;
Ec: 3.6.1.-
Engineered: Yes

Synthetic: Yes
Other_details: Solid-Phase Peptide Synthesis Of Chains C, D
symmetry Space Group: C 1 2 1
R_factor 0.141 R_Free 0.190
crystal
cell
length a length b length c angle alpha angle beta angle gamma
90.889 69.529 65.626 90.00 122.17 90.00
method X-Ray Diffractionresolution 1.60 Å
ligand MSE enzyme Hydrolase E.C.3.6.1 BRENDA
note 3JRV is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural basis for targeting of human RNA helicase DDX3 by poxvirus protein K7., Oda S, Schroder M, Khan AR, Structure. 2009 Nov 11;17(11):1528-37. PMID:19913487
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (119 Kb) [Save to disk]
  • Biological Unit Coordinates (3jrv.pdb1.gz) 57 Kb
  • Biological Unit Coordinates (3jrv.pdb2.gz) 57 Kb
  • Biological Unit Coordinates (3jrv.pdb3.gz) 3 Kb
  • LPC: Ligand-Protein Contacts for 3JRV
  • CSU: Contacts of Structural Units for 3JRV
  • Structure Factors (1193 Kb)
  • Retrieve 3JRV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3JRV from S2C, [Save to disk]
  • Re-refined 3jrv structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3JRV 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 3JRV
  • 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 3JRV, from MSDmotif at EBI
  • Fold representative 3jrv from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3jrv_E] [3jrv_C] [3jrv_A] [3jrv_B] [3jrv] [3jrv_D]
  • SWISS-PROT database: [O00571] [P68466]
  • Belongs to the eukaryotic nuclear pore complex (e-npc) family according to TCDB.
  • Domain organization of [DDX3X_HUMAN] [VK07_VACCW] by SWISSPFAM
  • Other resources with information on 3JRV
  • Community annotation for 3JRV 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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