2IXB Hydrolase date Jul 07, 2006
title Crystal Structure Of N-Acetylgalactosaminidase In Complex Wi
authors G.Sulzenbacher, Q.P.Liu, Y.Bourne, B.Henrissat, H.Clausen
compound source
Molecule: Alpha-N-Acetylgalactosaminidase
Chain: A
Ec: 3.2.1.49
Engineered: Yes
Organism_scientific: Flavobacterium Meningosepticum
Organism_taxid: 238
Atcc: 13253
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_variant: Rosetta Plyss
Expression_system_vector: Pet28
symmetry Space Group: P 65 2 2
R_factor 0.173 R_Free 0.200
crystal
cell
length a length b length c angle alpha angle beta angle gamma
88.189 88.189 301.438 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.40 Å
ligand A2G, MPD, MRD, NAD enzyme Hydrolase E.C.3.2.1.49 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • oxidoreductase activity


  • Primary referenceBacterial glycosidases for the production of universal red blood cells., Liu QP, Sulzenbacher G, Yuan H, Bennett EP, Pietz G, Saunders K, Spence J, Nudelman E, Levery SB, White T, Neveu JM, Lane WS, Bourne Y, Olsson ML, Henrissat B, Clausen H, Nat Biotechnol. 2007 Apr;25(4):454-64. Epub 2007 Apr 1. PMID:17401360
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (80 Kb) [Save to disk]
  • Biological Unit Coordinates (2ixb.pdb1.gz) 145 Kb
  • LPC: Ligand-Protein Contacts for 2IXB
  • CSU: Contacts of Structural Units for 2IXB
  • Likely Quarternary Molecular Structure file(s) for 2IXB
  • Structure Factors (201 Kb)
  • Retrieve 2IXB in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2IXB from S2C, [Save to disk]
  • Re-refined 2ixb structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2IXB 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 2IXB
  • 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 2IXB, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2ixb_A] [2ixb]
  • SWISS-PROT database: [A4Q8F7]
  • Domain organization of [GH109_FLAME] by SWISSPFAM
  • Other resources with information on 2IXB
  • Community annotation for 2IXB at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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