5EXW Chaperone date Nov 24, 2015
title Crystal Structure Of Human Grp78 (70kda Heat Shock Protein 5 Atpase Domain In Complex With 7-Deaza-Atp
authors S.J.Hughes, T.Antoshchenko, J.H.Song, J.Pizarro, H.W.Park
compound source
Molecule: 78 Kda Glucose-Regulated Protein
Chain: A, B
Fragment: Atpase Domain (Unp Residues 26-407)
Synonym: Grp-78, Endoplasmic Reticulum Lumenal Ca(2+)-Bindi Grp78, Heat Shock 70 Kda Protein 5, Immunoglobulin Heavy Ch Binding Protein, Bip;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Hspa5, Grp78
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_vector_type: Plasmid
symmetry Space Group: P 1 21 1
R_factor 0.165 R_Free 0.208
crystal
cell
length a length b length c angle alpha angle beta angle gamma
55.682 74.826 89.658 90.00 98.84 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand 7DT enzyme
Primary referenceProbing the ATP Site of GRP78 with Nucleotide Triphosphate Analogs., Hughes SJ, Antoshchenko T, Chen Y, Lu H, Pizarro JC, Park HW, PLoS One. 2016 May 4;11(5):e0154862. doi: 10.1371/journal.pone.0154862., eCollection 2016. PMID:27144892
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (259 Kb) [Save to disk]
  • Biological Unit Coordinates (5exw.pdb1.gz) 129 Kb
  • Biological Unit Coordinates (5exw.pdb2.gz) 127 Kb
  • LPC: Ligand-Protein Contacts for 5EXW
  • CSU: Contacts of Structural Units for 5EXW
  • Structure Factors (3970 Kb)
  • Retrieve 5EXW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5EXW from S2C, [Save to disk]
  • Re-refined 5exw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5EXW 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 5EXW
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5exw_A] [5exw] [5exw_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5EXW
  • Community annotation for 5EXW at PDBWiki (http://pdbwiki.org)

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