5CPW Viral Protein date Jul 21, 2015
title Crystal Structure Of Murine Polyomavirus Pta Strain Vp1 In C With The Gt1a Glycan
authors A.M.Liaci, M.H.C.Buch, U.Neu, T.Stehle
compound source
Molecule: Vp1
Chain: A, B, C, D, E
Engineered: Yes
 Organism_scientific: Murine Polyomavirus
Organism_taxid: 10634
Strain: Pta
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15b
symmetry Space Group: P 31 2 1
R_factor 0.160 R_Free 0.181
crystal
cell
length a length b length c angle alpha angle beta angle gamma
219.600 219.600 99.740 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.75 Å
ligand GAL, GOL, NGA, SIA enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, E, B


Primary referenceStructural and Functional Analysis of Murine Polyomavirus Capsid Proteins Establish the Determinants of Ligand Recognition and Pathogenicity., Buch MH, Liaci AM, O'Hara SD, Garcea RL, Neu U, Stehle T, PLoS Pathog. 2015 Oct 16;11(10):e1005104. doi: 10.1371/journal.ppat.1005104., eCollection 2015 Oct. PMID:26474293
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (490 Kb) [Save to disk]
  • Biological Unit Coordinates (5cpw.pdb1.gz) 479 Kb
  • LPC: Ligand-Protein Contacts for 5CPW
  • CSU: Contacts of Structural Units for 5CPW
  • Structure Factors (2340 Kb)
  • Retrieve 5CPW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5CPW from S2C, [Save to disk]
  • Re-refined 5cpw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5CPW 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 5CPW
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5cpw_B] [5cpw] [5cpw_A] [5cpw_E] [5cpw_C] [5cpw_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5CPW
  • Community annotation for 5CPW at PDBWiki (http://pdbwiki.org)

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