2DUO	Protein Transport	date	Jul 25, 2006
title	Crystal Structure Of Vip36 Exoplasmiclumenal Domain, Ca2+- Bound Form
authors	T.Satoh, N.P.Cowieson, R.Kato, S.Wakatsuki
compound		source
Molecule: Vesicular Integral-Membrane Protein Vip36 Chain: A, B Fragment: Residues 51-301 Synonym: Lectin, Mannose-Binding 2; Vip36 Engineered: Yes		Organism_scientific: Canis Lupus Familiaris Organism_common: Dog Organism_taxid: 9615 Strain: Familiaris Gene: Lman2 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pgex4t-1
symmetry	Space Group: C 1 2 1	R_factor 0.205 R_Free 0.241
crystal cell	length a length b length c angle alpha angle beta angle gamma 170.700 45.400 116.100 90.00 131.50 90.00
method	X-Ray Diffraction	resolution	1.80 Å
ligand	CA, CL	enzyme
Gene Ontology	Chain Function Process Component A, B
Primary reference	Structural basis for recognition of high mannose type glycoproteins by mammalian transport lectin VIP36., Satoh T, Cowieson NP, Hakamata W, Ideo H, Fukushima K, Kurihara M, Kato R, Yamashita K, Wakatsuki S, J Biol Chem. 2007 Sep 21;282(38):28246-55. Epub 2007 Jul 25. PMID:17652092

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (94 Kb) [Save to disk] Biological Unit Coordinates (2duo.pdb1.gz) 47 Kb Biological Unit Coordinates (2duo.pdb2.gz) 44 Kb LPC: Ligand-Protein Contacts for 2DUO CSU: Contacts of Structural Units for 2DUO Likely Quarternary Molecular Structure file(s) for 2DUO Structure Factors (1042 Kb) Retrieve 2DUO in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2DUO from S2C, [Save to disk] Re-refined 2duo structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2DUO 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 2DUO

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 2DUO, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2duo_A] [2duo_B] [2duo] SWISS-PROT database: [P49256] Domain organization of [LMAN2_CANFA] by SWISSPFAM

Other resources with information on 2DUO

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

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