3GXT Hydrolase date Apr 02, 2009
title Crystal Structure Of Alpha-Galactosidase A At Ph 4.5 Complex Deoxygalactonijirimycin
authors R.L.Lieberman
compound source
Molecule: Alpha-Galactosidase A
Chain: A, B
Synonym: Alpha-D-Galactoside Galactohydrolase, Alpha-D-Gala A, Melibiase;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gla
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
symmetry Space Group: P 32 2 1
R_factor 0.242 R_Free 0.306
length a length b length c angle alpha angle beta angle gamma
89.610 89.610 216.640 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.70 Å
ligand MAN, NAG, NOJ, SO4 BindingDB enzyme Hydrolase E.C. BRENDA
A, B

Primary referenceEffects of pH and Iminosugar Pharmacological Chaperones on Lysosomal Glycosidase Structure and Stability., Lieberman RL, D'aquino JA, Ringe D, Petsko GA, Biochemistry. 2009 May 1. PMID:19374450
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (135 Kb) [Save to disk]
  • Biological Unit Coordinates (3gxt.pdb1.gz) 127 Kb
  • LPC: Ligand-Protein Contacts for 3GXT
  • CSU: Contacts of Structural Units for 3GXT
  • Likely Quarternary Molecular Structure file(s) for 3GXT
  • Structure Factors (433 Kb)
  • Retrieve 3GXT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3GXT from S2C, [Save to disk]
  • Re-refined 3gxt structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3GXT 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 3GXT
  • 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 3GXT, from MSDmotif at EBI
  • Fold representative 3gxt from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3gxt_A] [3gxt] [3gxt_B]
  • SWISS-PROT database: [P06280]
  • Domain organization of [AGAL_HUMAN] by SWISSPFAM
  • Other resources with information on 3GXT
  • Community annotation for 3GXT 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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