2VF1 Virus date Oct 29, 2007
title X-Ray Crystallographic Structure Of The Picobirnavirus Capsid
authors S.Duquerroy, B.Da Costa, A.Vigouroux, J.Lepault, J.Navaza, B.Delmas, F.A.Rey
compound source
Molecule: Capsid Protein
Chain: A, B
Fragment: Mature Chain, Residues 66-590
Engineered: Yes
Organism_scientific: Rabbit Picobirnavirus
Organism_taxid: 104395
Strain: R5-9
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_cell_line: Sf9
Expression_system_vector_type: Baculovirus
Other_details: Isolated From Rabbit Faecal Material
symmetry Space Group: P 32 2 1
R_factor 0.273 R_Free 0.272
crystal
cell
length a length b length c angle alpha angle beta angle gamma
407.424 407.424 808.628 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.40 Å
Primary referenceThe picobirnavirus crystal structure provides functional insights into virion assembly and cell entry., Duquerroy S, Da Costa B, Henry C, Vigouroux A, Libersou S, Lepault J, Navaza J, Delmas B, Rey FA, EMBO J. 2009 Apr 30. PMID:19407816
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (177 Kb) [Save to disk]
  • Biological Unit Coordinates (2vf1.pdb1.gz) 9870 Kb
  • CSU: Contacts of Structural Units for 2VF1
  • Likely Quarternary Molecular Structure file(s) for 2VF1
  • Structure Factors (4351 Kb)
  • Retrieve 2VF1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2VF1 from S2C, [Save to disk]
  • View 2VF1 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 2VF1
  • VIPERdb: visual, structural and computational analysis of 2VF1
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2VF1, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1a2vf1, region F:237-672 [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2vf1_B] [2vf1_A] [2vf1]
  • SWISS-PROT database: [Q9Q1V2]
  • Domain organization of [Q9Q1V2_9VIRU] by SWISSPFAM
  • Other resources with information on 2VF1
  • Community annotation for 2VF1 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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