4PGB MHC Class I in complex with modified Sendai virus nucleoprotein peptide FAPGNWPAL date
authors Celie, P.H.N., Joosten, R.P., Perrakis, A., Neefjes, J.
compound source
symmetry
R_factor
R_Free 0.2809
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.80
Gene
Ontology
ChainFunctionProcessComponent
E, B


Primary referenceThe first step of peptide selection in antigen presentation by MHC class I molecules., Garstka MA, Fish A, Celie PH, Joosten RP, Janssen GM, Berlin I, Hoppes R, Stadnik M, Janssen L, Ovaa H, van Veelen PA, Perrakis A, Neefjes J, Proc Natl Acad Sci U S A. 2015 Feb 3;112(5):1505-10. doi:, 10.1073/pnas.1416543112. Epub 2015 Jan 20. PMID:25605945
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (264 Kb) [Save to disk]
  • Biological Unit Coordinates (4pgb.pdb1.gz) 130 Kb
  • Biological Unit Coordinates (4pgb.pdb2.gz) 130 Kb
  • CSU: Contacts of Structural Units for 4PGB
  • Structure Factors (901 Kb)
  • Retrieve 4PGB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4PGB from S2C, [Save to disk]
  • Re-refined 4pgb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4PGB 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 4PGB
  • 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 4PGB, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4pgb] [4pgb_B] [4pgb_C] [4pgb_D] [4pgb_F] [4pgb_A] [4pgb_E]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4PGB: [IGc1 ] by SMART
    • Other resources with information on 4PGB
  • Community annotation for 4PGB at PDBWiki (http://pdbwiki.org)

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