4POR Structure of Human Polyomavirus 9 VP1 pentamer in complex with 3'-sialyllactose date 2014-02-26
authors Khan, Z.M., Stehle, T.
compound source
symmetry
R_factor
R_Free 0.21570
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.09
ligand BGC, CA, EDO, GAL, IPA, SIA enzyme
Gene
Ontology
ChainFunctionProcessComponent
F, A, J, E, B, H, C, D, I, G


Primary referenceCrystallographic and glycan microarray analysis of human polyomavirus 9 VP1 identifies N-glycolyl neuraminic acid as a receptor candidate., Khan ZM, Liu Y, Neu U, Gilbert M, Ehlers B, Feizi T, Stehle T, J Virol. 2014 Jun;88(11):6100-11. doi: 10.1128/JVI.03455-13. Epub 2014 Mar 19. PMID:24648448
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (890 Kb) [Save to disk]
  • Biological Unit Coordinates (4por.pdb1.gz) 440 Kb
  • Biological Unit Coordinates (4por.pdb2.gz) 440 Kb
  • LPC: Ligand-Protein Contacts for 4POR
  • CSU: Contacts of Structural Units for 4POR
  • Structure Factors (1950 Kb)
  • Retrieve 4POR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4POR from S2C, [Save to disk]
  • Re-refined 4por structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4POR 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 4POR
  • 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 4POR, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4por_I] [4por_J] [4por_G] [4por] [4por_E] [4por_H] [4por_F] [4por_D] [4por_B] [4por_A] [4por_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4POR
  • Community annotation for 4POR at PDBWiki (http://pdbwiki.org)

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