2VMC	Cell Adhesion	date	Jan 25, 2008
title	Structure Of The Complex Of Discoidin II From Dictyostelium With N-Acetyl-Galactosamine
authors	K.Saboia, M.Satre, A.Imberty, A.Varrot
compound		source
Molecule: Discoidin-2 Chain: A Synonym: Discoidin II Engineered: Yes Other_details: Galactose-Binding Domain 163-257		Organism_scientific: Dictyostelium Discoideum Organism_common: Slime Mold Organism_taxid: 366501 Strain: Ax2 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_variant: Rosetta2 Plyss Expression_system_vector_type: Plasmid Expression_system_plasmid: Pproexhtb
symmetry	Space Group: H 3 2	R_factor 0.157 R_Free 0.198
crystal cell	length a length b length c angle alpha angle beta angle gamma 82.520 82.520 261.600 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	1.90 Å
ligand	1PG, A2G, CA, CL, EDO, NGA	enzyme
Gene Ontology	Chain Function Process Component A
Primary reference	Structure determination of Discoidin II from Dictyostelium discoideum and carbohydrate binding properties of the lectin domain., Aragao KS, Satre M, Imberty A, Varrot A, Proteins. 2008 Oct;73(1):43-52. PMID:18384150

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (55 Kb) [Save to disk] Biological Unit Coordinates (2vmc.pdb1.gz) 145 Kb LPC: Ligand-Protein Contacts for 2VMC CSU: Contacts of Structural Units for 2VMC Likely Quarternary Molecular Structure file(s) for 2VMC Structure Factors (906 Kb) Retrieve 2VMC in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2VMC from S2C, [Save to disk] Re-refined 2vmc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2VMC 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 2VMC

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 2VMC, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2vmc_A] [2vmc] SWISS-PROT database: [P42530] Domain organization of [DIS2_DICDI] by SWISSPFAM Domain found in 2VMC: [FA58C ] by SMART

Other resources with information on 2VMC

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

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