3UB3 Immune System date Oct 23, 2011
title D96n Variant Of Tir Domain Of Maltirap
authors Y.Shen, Z.Lin
compound source
Molecule: Tollinterleukin-1 Receptor Domain-Containing Ada Protein;
Chain: A
Fragment: Tir Domain, Unp Residues 78-221
Synonym: Mal, Tir Domain-Containing Adapter Protein, Adapto Wyatt, Myd88 Adapter-Like Protein;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Tirap, Mal
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
symmetry Space Group: P 43 21 2
R_factor 0.245 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
86.916 86.916 81.162 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.75 Å
ligand DTT enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural insights into TIR domain specificity of the bridging adaptor Mal in TLR4 signaling., Lin Z, Lu J, Zhou W, Shen Y, PLoS One. 2012;7(4):e34202. Epub 2012 Apr 2. PMID:22485159
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (25 Kb) [Save to disk]
  • Biological Unit Coordinates (3ub3.pdb1.gz) 40 Kb
  • LPC: Ligand-Protein Contacts for 3UB3
  • CSU: Contacts of Structural Units for 3UB3
  • Structure Factors (126 Kb)
  • Retrieve 3UB3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3UB3 from S2C, [Save to disk]
  • Re-refined 3ub3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3UB3 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 3UB3
  • 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 3UB3, from MSDmotif at EBI
  • Fold representative 3ub3 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ub3_A] [3ub3]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3UB3
  • Community annotation for 3UB3 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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