3BVV	Hydrolase	date	Jan 07, 2008
title	Golgi Mannosidase II D204a Catalytic Nucleophile Mutant Comp Methyl Alpha-D-Mannopyranosyl-(1->3)-[6-Thio-Alpha-D-Mannop (1->6)]-Beta-D-Mannopyranoside
authors	D.A.Kuntz, D.R.Rose
compound		source
Molecule: Alpha-Mannosidase 2 Chain: A Fragment: Catalytic Domain; Unp Residues 76-1108 Synonym: Alpha-Mannosidase II, Mannosyl-Oligosaccharide 1,3 Alpha-Mannosidase, Man II, Golgi Alpha-Mannosidase II, Aman Ec: 3.2.1.114 Engineered: Yes Mutation: Yes		Organism_scientific: Drosophila Melanogaster Organism_common: Fruit Fly Gene: Alpha-Man-II, Gmii Expression_system: Drosophila Melanogaster Expression_system_strain: S2 Cells Expression_system_vector_type: Stable Transfection Plasmid Expression_system_plasmid: Pmtbip_nhis
symmetry	Space Group: P 21 21 21	R_factor 0.152 R_Free 0.173
crystal cell	length a length b length c angle alpha angle beta angle gamma 69.104 109.815 139.303 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	1.30 Å
ligand	MAN, MPD, MRD, PO4, YZ0, Z4Y, ZN	enzyme	Hydrolase E.C.3.2.1.114 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Probing the Substrate Specificity of Golgi alpha-Mannosidase II by Use of Synthetic Oligosaccharides and a Catalytic Nucleophile Mutant., Zhong W, Kuntz DA, Ember B, Singh H, Moremen KW, Rose DR, Boons GJ, J Am Chem Soc. 2008 Jun 18;. PMID:18558690

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (407 Kb) [Save to disk] Biological Unit Coordinates (3bvv.pdb1.gz) 401 Kb LPC: Ligand-Protein Contacts for 3BVV CSU: Contacts of Structural Units for 3BVV Likely Quarternary Molecular Structure file(s) for 3BVV Structure Factors (3781 Kb) Retrieve 3BVV in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3BVV from S2C, [Save to disk] Re-refined 3bvv structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3BVV 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 3BVV

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 3D motif for 3BVV, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3bvv_A] [3bvv] SWISS-PROT database: [Q24451] Domain organization of [MAN2_DROME] by SWISSPFAM Domain found in 3BVV: [Alpha-mann_mid ] by SMART

Other resources with information on 3BVV

Community annotation for 3BVV at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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