3VD8	Sugar Binding Protein,Signaling Protein	date	Jan 04, 2012
title	Crystal Structure Of Human Aim2 Pyd Domain With Mbp Fusion
authors	T.C.Jin, A.Perry, P.Smith, T.S.Xiao
compound		source
Molecule: Maltose-Binding Periplasmic Protein, Interferon-I Protein Aim2; Chain: A Fragment: Pyd Domain (Unp Residues 1-107) Synonym: Mbp, Mmbp, Maltodextrin-Binding Protein, Absent In 2; Engineered: Yes Mutation: Yes		Organism_scientific: Escherichia Coli, Homo Sapiens Organism_common: Human Organism_taxid: 83334, 9606 Strain: O157:H7 Gene: Aim2, Ecs5017, Male, Mbp, Z5632 Expression_system: Escherichia Coli Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet30a
symmetry	Space Group: P 21 21 21	R_factor 0.182 R_Free 0.221
crystal cell	length a length b length c angle alpha angle beta angle gamma 61.599 91.934 100.281 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.07 Å
ligand	EDO, GLC, K	enzyme
Gene Ontology	Chain Function Process Component A carbohydrate transmembrane t...
Primary reference	Structure of the Absent in Melanoma 2 (AIM2) Pyrin Domain Provides Insights into the Mechanisms of AIM2 Autoinhibition and Inflammasome Assembly., Jin T, Perry A, Smith P, Jiang J, Xiao TS, J Biol Chem. 2013 May 10;288(19):13225-35. doi: 10.1074/jbc.M113.468033. Epub, 2013 Mar 25. PMID:23530044

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (87 Kb) [Save to disk] Biological Unit Coordinates (3vd8.pdb1.gz) 81 Kb LPC: Ligand-Protein Contacts for 3VD8 CSU: Contacts of Structural Units for 3VD8 Structure Factors (265 Kb) Retrieve 3VD8 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3VD8 from S2C, [Save to disk] Re-refined 3vd8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3VD8 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 3VD8

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 3VD8, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3vd8] [3vd8_A] SWISS-PROT database: Domain organization of by SWISSPFAM Domain found in 3VD8: [PYRIN ] by SMART

Other resources with information on 3VD8

Community annotation for 3VD8 at PDBWiki (http://pdbwiki.org)

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