4BOF Hydrolase date May 20, 2013
title Crystal Structure Of Arginine Deiminase From Group A Strepto
authors A.Henningham, D.J.Ericsson, K.Langer, L.Casey, B.Jovcevski, G.S.C J.A.Aquilina, M.R.Batzloff, B.Kobe, M.J.Walker
compound source
Molecule: Arginine Deiminase
Chain: A, B, C, D, E, F, G, H
Synonym: Adi, Arginine Dihydrolase, Ad, Streptococcal Acid Glycoprotein;
Ec: 3.5.3.6
Engineered: Yes
Organism_scientific: Streptococcus Pyogenes
Organism_taxid: 1314
Strain: Mgas5005
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_vector: Pet151
Other_details: Group A Streptococcus
symmetry Space Group: P 1
R_factor 0.2111 R_Free 0.2441
crystal
cell
length a length b length c angle alpha angle beta angle gamma
87.910 92.740 120.970 96.15 90.27 100.13
method X-Ray Diffractionresolution 2.48 Å
ligand PG4, PGE, SO4 enzyme Hydrolase E.C.3.5.3.6 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
F, A, E, B, H, C, D, G
  • arginine deiminase activity


  • Primary referenceStructure-informed design of an enzymatically inactive vaccine component for group A Streptococcus., Henningham A, Ericsson DJ, Langer K, Casey LW, Jovcevski B, Chhatwal GS, Aquilina JA, Batzloff MR, Kobe B, Walker MJ, MBio. 2013 Aug 6;4(4). pii: e00509-13. doi: 10.1128/mBio.00509-13. PMID:23919999
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1113 Kb) [Save to disk]
  • Biological Unit Coordinates (4bof.pdb1.gz) 282 Kb
  • Biological Unit Coordinates (4bof.pdb2.gz) 281 Kb
  • Biological Unit Coordinates (4bof.pdb3.gz) 280 Kb
  • Biological Unit Coordinates (4bof.pdb4.gz) 283 Kb
  • Biological Unit Coordinates (4bof.pdb5.gz) 282 Kb
  • LPC: Ligand-Protein Contacts for 4BOF
  • CSU: Contacts of Structural Units for 4BOF
  • Structure Factors (1016 Kb)
  • Retrieve 4BOF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4BOF from S2C, [Save to disk]
  • Re-refined 4bof structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4BOF 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 4BOF
  • 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
  • 3D motif for 4BOF, from MSDmotif at EBI
  • Fold representative 4bof from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4bof_A] [4bof_H] [4bof_F] [4bof_G] [4bof_D] [4bof_E] [4bof] [4bof_B] [4bof_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4BOF
  • Community annotation for 4BOF at PDBWiki (http://pdbwiki.org)

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