3O8R Hydrolase Rna date Aug 03, 2010
title Visualizing Atp-Dependent Rna Translocation By The Ns3 Helic Hcv
authors T.C.Appleby, J.R.Somoza
compound source
Molecule: Hcv Ns3 Proteasehelicase
Chain: A, B
Ec: 3.4.21.98, 3.6.1.15, 3.6.4.13
Engineered: Yes
Organism_scientific: Hepatitis C Virus Subtype 1b
Organism_taxid: 31647
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15b

Molecule: Rna (5'-R(Pup(5bu)Pupupupu)-3')
Chain: C
Engineered: Yes

Synthetic: Yes
Other_details: This Rna Oligonucleotide Was Created With An Automated Rnadna Synthesizer Using Phosphoramidite Chemist
symmetry Space Group: P 21 21 21
R_factor 0.215 R_Free 0.263
crystal
cell
length a length b length c angle alpha angle beta angle gamma
91.033 110.827 141.979 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand 5BU, ADP, BEF, MG, SO4, ZN enzyme Hydrolase E.C.3.4.21.98 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceVisualizing ATP-Dependent RNA Translocation by the NS3 Helicase from HCV., Appleby TC, Anderson R, Fedorova O, Pyle AM, Wang R, Liu X, Brendza KM, Somoza JR, J Mol Biol. 2010 Dec 9. PMID:21145896
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (207 Kb) [Save to disk]
  • Biological Unit Coordinates (3o8r.pdb1.gz) 201 Kb
  • LPC: Ligand-Protein Contacts for 3O8R
  • CSU: Contacts of Structural Units for 3O8R
  • Structure Factors (594 Kb)
  • Retrieve 3O8R in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3O8R from S2C, [Save to disk]
  • Re-refined 3o8r structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3O8R 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 3O8R
  • 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 3O8R, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3o8r] [3o8r_A] [3o8r_B] [3o8r_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3O8R: [DEXDc ] by SMART
  • Other resources with information on 3O8R
  • Community annotation for 3O8R 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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