3IGU Hydrolase date Jul 28, 2009
title Crystal Structure Of Human Alpha-N-Acetylgalactosaminidase, Intermediate
authors N.E.Clark, S.C.Garman
compound source
Molecule: Alpha-N-Acetylgalactosaminidase
Chain: A, B
Synonym: Alpha-Galactosidase B
Ec: 3.2.1.49
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Naga
Expression_system: Trichoplusia Ni
Expression_system_taxid: 7111
Expression_system_strain: Hi-Five
Expression_system_vector_type: Stable Cell Line
Expression_system_plasmid: Pibv5-His-Topo Ta
symmetry Space Group: C 1 2 1
R_factor 0.164 R_Free 0.199
crystal
cell
length a length b length c angle alpha angle beta angle gamma
151.612 113.649 68.415 90.00 96.14 90.00
method X-Ray Diffractionresolution 2.15 Å
ligand 7JZ, BMA, FUC, GOL, MAN, NAG enzyme Hydrolase E.C.3.2.1.49 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceThe 1.9 a structure of human alpha-N-acetylgalactosaminidase: The molecular basis of Schindler and Kanzaki diseases., Clark NE, Garman SC, J Mol Biol. 2009 Oct 23;393(2):435-47. Epub 2009 Aug 14. PMID:19683538
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (150 Kb) [Save to disk]
  • Biological Unit Coordinates (3igu.pdb1.gz) 142 Kb
  • LPC: Ligand-Protein Contacts for 3IGU
  • CSU: Contacts of Structural Units for 3IGU
  • Structure Factors (500 Kb)
  • Retrieve 3IGU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3IGU from S2C, [Save to disk]
  • Re-refined 3igu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3IGU 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 3IGU
  • 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 3IGU, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3igu_A] [3igu_B] [3igu]
  • SWISS-PROT database: [P17050]
  • Domain organization of [NAGAB_HUMAN] by SWISSPFAM
  • Other resources with information on 3IGU
  • Community annotation for 3IGU at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science