3FD4 Viral Protein date Nov 24, 2008
title Crystal Structure Of Epstein-Barr Virus Gp42 Protein
authors A.Kirschner, T.Jardetzky
compound source
Molecule: Glycoprotein Gp42
Chain: A, B
Engineered: Yes
 Organism_scientific: Human Herpesvirus 4 (Strain B95-8)
Organism_taxid: 10377
Strain: B95-8
Gene: Bzlf2
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_plasmid: Pbacgus-3
symmetry Space Group: P 21 21 21
R_factor 0.215 R_Free 0.242
crystal
cell
length a length b length c angle alpha angle beta angle gamma
64.792 67.469 79.463 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
Primary referenceStructure of Epstein-Barr virus glycoprotein 42 suggests a mechanism for triggering receptor-activated virus entry., Kirschner AN, Sorem J, Longnecker R, Jardetzky TS, Structure. 2009 Feb 13;17(2):223-33. PMID:19217393
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (57 Kb) [Save to disk]
  • Biological Unit Coordinates (3fd4.pdb1.gz) 52 Kb
  • Biological Unit Coordinates (3fd4.pdb2.gz) 26 Kb
  • Biological Unit Coordinates (3fd4.pdb3.gz) 28 Kb
  • CSU: Contacts of Structural Units for 3FD4
  • Likely Quarternary Molecular Structure file(s) for 3FD4
  • Structure Factors (213 Kb)
  • Retrieve 3FD4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3FD4 from S2C, [Save to disk]
  • Re-refined 3fd4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3FD4 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 3FD4
  • 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 3FD4, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3fd4_B] [3fd4_A] [3fd4]
  • SWISS-PROT database: [P03205]
  • Belongs to the epstein barr virus (human herpes virus 4) gp42 (gp42) family according to TCDB.
  • Domain organization of [GP42_EBVB9] by SWISSPFAM
  • Domain found in 3FD4: [CLECT ] by SMART
    • Other resources with information on 3FD4
  • Community annotation for 3FD4 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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