4MBY Structure of B-Lymphotropic Polyomavirus VP1 in complex with 3'-sialyllactose date 2013-08-21
authors Khan, Z.M., Neu, U., Stehle, T.
compound source
symmetry
R_factor
R_Free 0.18578
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.48
ligand BGC, CA, CL, EDO, GAL, IPA, SIA enzyme
Gene
Ontology
ChainFunctionProcessComponent
F, A, J, E, B, H, C, D, I, G


Primary referenceStructures of B-Lymphotropic Polyomavirus VP1 in Complex with Oligosaccharide Ligands., Neu U, Khan ZM, Schuch B, Palma AS, Liu Y, Pawlita M, Feizi T, Stehle T, PLoS Pathog. 2013 Oct;9(10):e1003714. doi: 10.1371/journal.ppat.1003714. Epub, 2013 Oct 31. PMID:24204265
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (924 Kb) [Save to disk]
  • Biological Unit Coordinates (4mby.pdb1.gz) 466 Kb
  • Biological Unit Coordinates (4mby.pdb2.gz) 448 Kb
  • LPC: Ligand-Protein Contacts for 4MBY
  • CSU: Contacts of Structural Units for 4MBY
  • Structure Factors (4885 Kb)
  • Retrieve 4MBY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4MBY from S2C, [Save to disk]
  • Re-refined 4mby structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4MBY 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 4MBY
  • 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 4MBY, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4mby_D] [4mby_B] [4mby_E] [4mby_G] [4mby_I] [4mby_C] [4mby_F] [4mby_H] [4mby_A] [4mby_J] [4mby]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4MBY
  • Community annotation for 4MBY at PDBWiki (http://pdbwiki.org)

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