2GH8 Virus date Mar 26, 2006
title X-Ray Structure Of A Native Calicivirus
authors R.Chen
compound source
Molecule: Capsid Protein
Chain: A, B, C
Synonym: Coat Protein
 Organism_scientific: San Miguel Sea Lion Virus 4
Organism_taxid: 36407
Strain: Serotype 4
symmetry Space Group: I 2 3
R_factor 0.249 R_Free 0.260
crystal
cell
length a length b length c angle alpha angle beta angle gamma
457.553 457.553 457.553 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.20 Å
Primary referenceX-ray structure of a native calicivirus: Structural insights into antigenic diversity and host specificity., Chen R, Neill JD, Estes MK, Prasad BV, Proc Natl Acad Sci U S A. 2006 May 23;103(21):8048-53. Epub 2006 May 15. PMID:16702551
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (260 Kb) [Save to disk]
  • Biological Unit Coordinates (2gh8.pdb1.gz) 14970 Kb
  • CSU: Contacts of Structural Units for 2GH8
  • Likely Quarternary Molecular Structure file(s) for 2GH8
  • Structure Factors (1547 Kb)
  • Retrieve 2GH8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2GH8 from S2C, [Save to disk]
  • Re-refined 2gh8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2GH8 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 2GH8
  • VIPERdb: visual, structural and computational analysis of 2GH8
  • 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 2GH8, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2gh8_B] [2gh8_C] [2gh8_A] [2gh8]
  • SWISS-PROT database: [P36285]
  • Domain organization of [CAPSD_SMSV4] by SWISSPFAM
    • Other resources with information on 2GH8
  • Community annotation for 2GH8 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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