1Y7V Hydrolase date Dec 10, 2004
title X-Ray Structure Of Human Acid-Beta-Glucosidase Covalently Bo Conduritol B Epoxide
authors L.Premkumar, A.R.Sawkar, S.Boldin-Adamsky, L.Toker, I.Silman, J.W A.H.Futerman, J.L.Sussman, Israel Structural Proteomics Cente
compound source
Molecule: Glucosylceramidase
Chain: A, B
Synonym: Beta-Glucocerebrosidase, Acid Beta-Glucosidase, D- N-Acylsphingosine Glucohydrolase, Alglucerase, Imiglucerase
Ec: 3.2.1.45
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Gba, Gc
Expression_system: Cricetulus Griseus
Expression_system_common: Chinese Hamster
Expression_system_taxid: 10029
Expression_system_cell_line: Ovary Cells
symmetry Space Group: C 2 2 21
R_factor 0.242 R_Free 0.280
crystal
cell
length a length b length c angle alpha angle beta angle gamma
104.490 285.610 91.510 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand INS, NAG, SO4 enzyme Hydrolase E.C.3.2.1.45 BRENDA
related structures by homologous chain: 1OGS
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • negative regulation of inter...

  • Primary referenceX-ray structure of human acid-beta-glucosidase covalently bound to conduritol-B-epoxide. Implications for Gaucher disease., Premkumar L, Sawkar AR, Boldin-Adamsky S, Toker L, Silman I, Kelly JW, Futerman AH, Sussman JL, J Biol Chem 2005 Jun 24;280(25):23815-9. Epub 2005 Apr 6. PMID:15817452
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (175 Kb) [Save to disk]
  • Biological Unit Coordinates (1y7v.pdb1.gz) 86 Kb
  • Biological Unit Coordinates (1y7v.pdb2.gz) 86 Kb
  • Biological Unit Coordinates (1y7v.pdb3.gz) 331 Kb
  • Biological Unit Coordinates (1y7v.pdb4.gz) 332 Kb
  • Biological Unit Coordinates (1y7v.pdb5.gz) 168 Kb
  • Biological Unit Coordinates (1y7v.pdb6.gz) 167 Kb
  • LPC: Ligand-Protein Contacts for 1Y7V
  • CSU: Contacts of Structural Units for 1Y7V
  • Likely Quarternary Molecular Structure file(s) for 1Y7V
  • Structure Factors (538 Kb)
  • Retrieve 1Y7V in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1Y7V from S2C, [Save to disk]
  • Re-refined 1y7v structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1Y7V 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 1Y7V
  • 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 1Y7V, from MSDmotif at EBI
  • Fold representative 1y7v from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1y7v_B] [1y7v_A] [1y7v]
  • SWISS-PROT database: [P04062]
  • Domain organization of [GLCM_HUMAN] by SWISSPFAM
  • Other resources with information on 1Y7V
  • Community annotation for 1Y7V at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
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