2VT0	Hydrolase	date	May 03, 2008
title	X-Ray Structure Of A Conjugate With Conduritol-Beta-Epoxide Of Acid-Beta-Glucosidase Overexpressed In Cultured Plant Cells
authors	B.Brumshtein, H.M.Greenblatt, Y.Shaaltiel, D.Aviezer, I.Silman, A.H.Futerman, J.L.Sussman
compound		source
Molecule: Glucosylceramidase Chain: A, B Fragment: Tim Barrel Glucosidase, Residues 40-536 Synonym: Beta-Glucocerebrosidase, Acid Beta-Glucosidase, D-Glucosyl-N-Acylsphingosine Glucohydrolase, Glucosidase; Ec: 3.2.1.45 Engineered: Yes Other_details: The Enzyme Is Covalently Inhibited By Cbe		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Organ: Lysosome Expression_system: Daucus Carota Expression_system_taxid: 4039
symmetry	Space Group: P 1 21 1	R_factor 0.152 R_Free 0.201
crystal cell	length a length b length c angle alpha angle beta angle gamma 68.184 96.884 83.171 90.00 103.73 90.00
method	X-Ray Diffraction	resolution	2.15 Å
ligand	CBU, FUC, MAN, NAG, SO4	enzyme	Hydrolase E.C.3.2.1.45 BRENDA
subcellular loc.	Membrane localization by OPM: Lysosome membrane
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	Acid beta-glucosidase: insights from structural analysis and relevance to Gaucher disease therapy., Kacher Y, Brumshtein B, Boldin-Adamsky S, Toker L, Shainskaya A, Silman I, Sussman JL, Futerman AH, Biol Chem. 2008 Nov;389(11):1361-9. PMID:18783340

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (174 Kb) [Save to disk] Biological Unit Coordinates (2vt0.pdb1.gz) 86 Kb Biological Unit Coordinates (2vt0.pdb2.gz) 85 Kb LPC: Ligand-Protein Contacts for 2VT0 CSU: Contacts of Structural Units for 2VT0 Likely Quarternary Molecular Structure file(s) for 2VT0 Structure Factors (447 Kb) Retrieve 2VT0 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2VT0 from S2C, [Save to disk] Re-refined 2vt0 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2VT0 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 2VT0

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 2VT0, from MSDmotif at EBI Fold representative 2vt0 from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2vt0_A] [2vt0_B] SWISS-PROT database: [Q9BDT0] Domain organization of [GLCM_PANTR] by SWISSPFAM Alignments of the sequence of 2VT0 with the sequences similar proteins can be viewed for 2VT0's classification [GLCM_PANTR] 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_PANTR] at ProtoMap. Click on the Cluster number.

Other resources with information on 2VT0

Community annotation for 2VT0 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, 1996-2010 Bioinformatics Unit Weizmann Institute of Science

---