2V3E	Hydrolase	date	Jun 17, 2007
title	Acid-Beta-Glucosidase With N-Nonyl-Deoxynojirimycin
authors	B.Brumshtein, H.M.Greenblatt, T.D.Butters, Y.Shaaltiel, D.Aviezer, I.Silman, A.H.Futerman, J.L.Sussman
compound		source
Molecule: Glucosylceramidase Chain: A, B Synonym: Beta-Glucocerebrosidase, Acid-Beta-Glucosidase, D-Glucosyl-N-Acylsphingosine Glucohydrolase, Alglucerase, Imiglucerase; Ec: 3.2.1.45 Engineered: Yes Other_details: Nn-Dnj In The Active Site		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Daucus Carota Expression_system_taxid: 4039
symmetry	Space Group: P 1 21 1	R_factor 0.160 R_Free 0.220
crystal cell	length a length b length c angle alpha angle beta angle gamma 67.998 97.646 82.348 90.00 102.75 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	BMA, FUC, NAG, NND, PO4 BindingDB	enzyme	Hydrolase E.C.3.2.1.45 BRENDA
Gene Ontology	Chain Function Process Component A, B glucosylceramidase activity receptor binding hydrolase activity hydrolase activity, acting o... lipid metabolic process sphingolipid metabolic proce... glucosylceramide catabolic p... glycosphingolipid metabolic ... metabolic process cell death termination of signal transd... negative regulation of inter... positive regulation of prote... negative regulation of MAP k... small molecule metabolic pro... sphingosine biosynthetic pro... ceramide biosynthetic proces... negative regulation of infla... cellular response to tumor n... lysosome lysosomal membrane membrane lysosomal lumen
Primary reference	Crystal structures of complexes of N-butyl- and N-nonyl-deoxynojirimycin bound to acid-beta -glucosidase: Insights into the mechanism of chemical chaperone action in gaucher disease., Brumshtein B, Greenblatt HM, Butters TD, Shaaltiel Y, Aviezer D, Silman I, Futerman AH, Sussman JL, J Biol Chem. 2007 Jul 31;. PMID:17666401

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (188 Kb) [Save to disk] Biological Unit Coordinates (2v3e.pdb1.gz) 93 Kb Biological Unit Coordinates (2v3e.pdb2.gz) 92 Kb LPC: Ligand-Protein Contacts for 2V3E CSU: Contacts of Structural Units for 2V3E Likely Quarternary Molecular Structure file(s) for 2V3E Structure Factors (502 Kb) Retrieve 2V3E in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2V3E from S2C, [Save to disk] Re-refined 2v3e structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2V3E 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 2V3E

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 2V3E, from MSDmotif at EBI Fold representative 2v3e from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2v3e_A] [2v3e_B] SWISS-PROT database: [P04062] Domain organization of [GLCM_HUMAN] by SWISSPFAM Alignments of the sequence of 2V3E with the sequences similar proteins can be viewed for 2V3E's classification [GLCM_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [GLCM_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 2V3E

Community annotation for 2V3E at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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