3VZO Hydrolase Hydrolase Inhibitor date Oct 15, 2012
title Crystal Structure Of The Bacillus Circulans Endo-Beta-(1,4)- (Bcx) N35h Mutant With Glu78 Covalently Bonded To 2-Deoxy-2 Xylobiose
authors M.L.Ludwiczek, I.D'Angelo, G.N.Yalloway, M.Okon, J.E.Nielsen, N.C.Strynadka, S.G.Withers, L.P.Mcintosh
compound source
Molecule: Endo-1,4-Beta-Xylanase
Chain: A
Synonym: Xylanase, 1,4-Beta-D-Xylan Xylanohydrolase
Ec: 3.2.1.8
Engineered: Yes
Mutation: Yes
 Organism_scientific: Bacillus Circulans
Organism_taxid: 1397
Gene: Xlna
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 2
R_factor 0.165 R_Free 0.200
crystal
cell
length a length b length c angle alpha angle beta angle gamma
53.226 72.240 43.394 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.73 Å
ligand DFX, SO4, XYP enzyme Hydrolase E.C.3.2.1.8 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStrategies for Modulating the pH-Dependent Activity of a Family 11 Glycoside Hydrolase., Ludwiczek ML, D'Angelo I, Yalloway GN, Brockerman JA, Okon M, Nielsen JE, Strynadka NC, Withers SG, McIntosh LP, Biochemistry. 2013 May 7;52(18):3138-56. doi: 10.1021/bi400034m. Epub 2013 Apr, 24. PMID:23578322
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (39 Kb) [Save to disk]
  • Biological Unit Coordinates (3vzo.pdb1.gz) 34 Kb
  • LPC: Ligand-Protein Contacts for 3VZO
  • CSU: Contacts of Structural Units for 3VZO
  • Structure Factors (244 Kb)
  • Retrieve 3VZO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3VZO from S2C, [Save to disk]
  • Re-refined 3vzo structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3VZO 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 3VZO
  • 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 3VZO, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3vzo] [3vzo_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 3VZO
  • Community annotation for 3VZO at PDBWiki (http://pdbwiki.org)

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