5FPD Chaperone date Nov 28, 2015
title Structure Of Heat Shock-Related 70kda Protein 2 With Small-M Ligand Pyrazine-2-Carboxamide (At513) In An Alternate Bindi
authors H.Jhoti, R.F.Ludlow, S.Patel, H.K.Saini, I.J.Tickle, M.Verdonk
compound source
Molecule: Heat Shock-Related 70kda Protein 2
Chain: A, B
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28b
symmetry Space Group: P 1 21 1
R_factor 0.170 R_Free 0.223
crystal
cell
length a length b length c angle alpha angle beta angle gamma
48.800 95.062 81.779 90.00 90.03 90.00
method X-Ray Diffractionresolution 1.97 Å
ligand PZA enzyme
Primary referenceDetection of secondary binding sites in proteins using fragment screening., Ludlow RF, Verdonk ML, Saini HK, Tickle IJ, Jhoti H, Proc Natl Acad Sci U S A. 2015 Dec 11. pii: 201518946. PMID:26655740
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (252 Kb) [Save to disk]
  • Biological Unit Coordinates (5fpd.pdb1.gz) 125 Kb
  • Biological Unit Coordinates (5fpd.pdb2.gz) 124 Kb
  • LPC: Ligand-Protein Contacts for 5FPD
  • CSU: Contacts of Structural Units for 5FPD
  • Structure Factors (956 Kb)
  • Retrieve 5FPD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5FPD from S2C, [Save to disk]
  • Re-refined 5fpd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5FPD 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 5FPD
  • 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: [5fpd_A] [5fpd] [5fpd_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5FPD
  • Community annotation for 5FPD at PDBWiki (http://pdbwiki.org)

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