5AFG Structure of the Stapled Peptide Bound to Mdm2 date
authors Lau, Y.H., Wu, Y., Rossmann, M., Andrade, P.de., Tan, Y.S., McKenzie, G.J., Venkitaraman, A.R., Hyvonen, M., Spring, D.R.
compound source
symmetry
R_factor
R_Free 0.22616
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.90
ligand LAY, P07 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceDouble Strain-Promoted Macrocyclization for the Rapid Selection of Cell-Active Stapled Peptides., Lau YH, Wu Y, Rossmann M, Tan BX, de Andrade P, Tan YS, Verma C, McKenzie GJ, Venkitaraman AR, Hyvonen M, Spring DR, Angew Chem Int Ed Engl. 2015 Dec 14;54(51):15410-3. doi: 10.1002/anie.201508416. , Epub 2015 Nov 2. PMID:26768531
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (24 Kb) [Save to disk]
  • Biological Unit Coordinates (5afg.pdb1.gz) 19 Kb
  • LPC: Ligand-Protein Contacts for 5AFG
  • CSU: Contacts of Structural Units for 5AFG
  • Structure Factors (193 Kb)
  • Retrieve 5AFG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5AFG from S2C, [Save to disk]
  • Re-refined 5afg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5AFG 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 5AFG
  • 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: [5afg] [5afg_B] [5afg_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5AFG
  • Community annotation for 5AFG at PDBWiki (http://pdbwiki.org)

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