5A7R Hydrolase date Jul 09, 2015
title Human Poly(Adp-Ribose) Glycohydrolase In Complex With Synthetic Dimeric Adp-Ribose
authors M.J.Lambrecht, M.Brichacek, E.Barkauskaite, A.Ariza, I.Ahel, P.J.Hergenrother
compound source
Molecule: Poly(Adp-Ribose) Glycohydrolase
Chain: A
Ec: 3.2.1.143
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Rosetta Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a
symmetry Space Group: P 21 21 21
R_factor 0.13730 R_Free 0.17890
crystal
cell
length a length b length c angle alpha angle beta angle gamma
67.457 91.277 96.123 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.95 Å
ligand AR6, BME, GOL, PPI, SO4 enzyme Hydrolase E.C.3.2.1.143 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceSynthesis of dimeric ADP-ribose and its structure with human poly(ADP-ribose) glycohydrolase., Lambrecht MJ, Brichacek M, Barkauskaite E, Ariza A, Ahel I, Hergenrother PJ, J Am Chem Soc. 2015 Mar 18;137(10):3558-64. doi: 10.1021/ja512528p. Epub 2015 Mar, 4. PMID:25706250
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (105 Kb) [Save to disk]
  • Biological Unit Coordinates (5a7r.pdb1.gz) 98 Kb
  • LPC: Ligand-Protein Contacts for 5A7R
  • CSU: Contacts of Structural Units for 5A7R
  • Structure Factors (2340 Kb)
  • Retrieve 5A7R in mmCIF format [Save to disk]
  • Re-refined 5a7r structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5A7R 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 5A7R
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5a7r from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5a7r] [5a7r_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5A7R
  • Community annotation for 5A7R at PDBWiki (http://pdbwiki.org)

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