4B3K Hydrolase date Jul 24, 2012
title Family 1 6-Phospho-Beta-D Glycosidase From Streptococcus Pyo
authors J.Stepper, J.Dabin, J.M.Ekloef, P.Thongpoo, P.T.Kongsaeree, E.J.T J.P.Turkenburg, H.Brumer, G.J.Davies
compound source
Molecule: Beta-Glucosidase
Chain: A, B, C, D, E, F
Synonym: 6-Phospho Beta-Glycosidase
Ec: 3.2.1.21, 3.2.1.86
Engineered: Yes
Organism_scientific: Streptococcus Pyogenes
Organism_taxid: 1314
Strain: M1 Gas, Sf370
Atcc: 700294
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_vector: Pet30
symmetry Space Group: P 1 21 1
R_factor 0.223 R_Free 0.286
crystal
cell
length a length b length c angle alpha angle beta angle gamma
106.420 190.200 106.170 90.00 118.88 90.00
method X-Ray Diffractionresolution 2.60 Å
ligand
enzyme Hydrolase E.C.3.2.1.21 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
F, A, D, C, E, B


Primary referenceStructure and activity of the Streptococcus pyogenes family GH1 6-phospho-beta-glucosidase SPy1599., Stepper J, Dabin J, Eklof JM, Thongpoo P, Kongsaeree P, Taylor EJ, Turkenburg JP, Brumer H, Davies GJ, Acta Crystallogr D Biol Crystallogr. 2013 Jan;69(Pt 1):16-23. doi:, 10.1107/S0907444912041005. Epub 2012 Dec 20. PMID:23275159
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (451 Kb) [Save to disk]
  • Biological Unit Coordinates (4b3k.pdb1.gz) 79 Kb
  • Biological Unit Coordinates (4b3k.pdb2.gz) 79 Kb
  • Biological Unit Coordinates (4b3k.pdb3.gz) 79 Kb
  • Biological Unit Coordinates (4b3k.pdb4.gz) 78 Kb
  • Biological Unit Coordinates (4b3k.pdb5.gz) 79 Kb
  • Biological Unit Coordinates (4b3k.pdb6.gz) 79 Kb
  • CSU: Contacts of Structural Units for 4B3K
  • Structure Factors (1462 Kb)
  • Retrieve 4B3K in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4B3K from S2C, [Save to disk]
  • Re-refined 4b3k structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4B3K 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 4B3K
  • 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
  • 3D motif for 4B3K, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4b3k_F] [4b3k] [4b3k_B] [4b3k_A] [4b3k_E] [4b3k_D] [4b3k_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4B3K
  • Community annotation for 4B3K at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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