2V3F	Hydrolase	date	Jun 17, 2007
title	Acid-Beta-Glucosidase Produced In Carrot
authors	Y.Shaaltiel, D.Bartfeld, S.Hashmueli, G.Baum, E.Brill-Almon, G.Galili, O.Dym, S.A.Boldin-Adamsky, I.Silman, J.L.Sussman, A.H.Futerman, D.Aviezer, Israel Structural Proteomics Center(Ispc)
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		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 0.149 R_Free 0.196
crystal cell	length a length b length c angle alpha angle beta angle gamma 68.088 97.104 82.932 90.00 104.43 90.00
method	X-Ray Diffraction	resolution	1.95 Å
ligand	BTB, FUC, MAN, NAG, SO4	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	Production of glucocerebrosidase with terminal mannose glycans for enzyme replacement therapy of Gaucher's disease using a plant cell system., Shaaltiel Y, Bartfeld D, Hashmueli S, Baum G, Brill-Almon E, Galili G, Dym O, Boldin-Adamsky SA, Silman I, Sussman JL, Futerman AH, Aviezer D, Plant Biotechnol J. 2007 Sep;5(5):579-90. Epub 2007 May 24. PMID:17524049

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (183 Kb) [Save to disk] Biological Unit Coordinates (2v3f.pdb1.gz) 91 Kb Biological Unit Coordinates (2v3f.pdb2.gz) 90 Kb LPC: Ligand-Protein Contacts for 2V3F CSU: Contacts of Structural Units for 2V3F Likely Quarternary Molecular Structure file(s) for 2V3F Structure Factors (574 Kb) Retrieve 2V3F in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2V3F from S2C, [Save to disk] Re-refined 2v3f structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2V3F 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 2V3F

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 2V3F, from MSDmotif at EBI Fold representative 2v3f from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2v3f_A] [2v3f_B] SWISS-PROT database: [P04062] Domain organization of [GLCM_HUMAN] by SWISSPFAM Alignments of the sequence of 2V3F with the sequences similar proteins can be viewed for 2V3F'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 2V3F

Community annotation for 2V3F at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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