4PCH Viral Protein date Apr 15, 2014
title Structure Of Human Polyomavirus 7 (Hpyv7) Vp1 Pentamer
authors L.J.Stroh, T.Stehle
compound source
Molecule: Vp1
Chain: A, B, C, D, E
Engineered: Yes
Organism_scientific: Polyomavirus Hpyv7
Organism_taxid: 746831
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15b
symmetry Space Group: C 1 2 1
R_factor 0.169 R_Free 0.197
length a length b length c angle alpha angle beta angle gamma
209.670 86.430 84.210 90.00 92.14 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand GOL enzyme
A, D, C, E, B

Primary referenceStructure Analysis of the Major Capsid Proteins of the Human Polyomavirus 6 and 7 Reveals an Obstructed Sialic Acid Binding Site., Stroh LJ, Neu U, Blaum BS, Buch MH, Garcea RL, Stehle T, J Virol. 2014 Jul 9. pii: JVI.01084-14. PMID:25008942
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (433 Kb) [Save to disk]
  • Biological Unit Coordinates (4pch.pdb1.gz) 424 Kb
  • LPC: Ligand-Protein Contacts for 4PCH
  • CSU: Contacts of Structural Units for 4PCH
  • Structure Factors (1406 Kb)
  • Retrieve 4PCH in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4PCH from S2C, [Save to disk]
  • Re-refined 4pch structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4PCH 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 4PCH
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4PCH, from MSDmotif at EBI
  • Fold representative 4pch from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4pch_B] [4pch_D] [4pch] [4pch_C] [4pch_E] [4pch_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4PCH
  • Community annotation for 4PCH at PDBWiki (http://pdbwiki.org)

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