3O4O Immune System date Jul 27, 2010
title Crystal Structure Of An Interleukin-1 Receptor Complex
authors X.Q.Wang, D.L.Wang, S.Y.Zhang, L.Li, X.Liu, K.R.Mei
compound source
Molecule: Interleukin-1 Beta
Chain: A
Synonym: Il-1beta, Il-1 Beta, Catabolin
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex-6p-1

Molecule: Interleukin-1 Receptor Type 2
Chain: C
Fragment: Il-1rii Ectodomain, Residues 14-343
Synonym: Il-1rii, Il-1rt-2, Il-1rt2, Il-1r-2, Interleukin-1 Type II, Interleukin-1 Receptor Beta, Il-1r-Beta, Cd121 Ant Family Member B, Cdw121b;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_cell_line: Sf9
Expression_system_vector_type: Baculovirus
Expression_system_vector: Pacgp67-A

Molecule: Interleukin-1 Receptor Accessory Protein
Chain: B
Fragment: Il-1racp Ectodomain, Residues 21-350
Synonym: Il-1racp, Il-1 Receptor Accessory Protein, Interle Receptor 3, Il-1r-3, Il-1r3;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_cell_line: Sf9
Expression_system_vector_type: Baculovirus
Expression_system_vector: Pacgp67-A
symmetry Space Group: P 21 21 21
R_factor 0.252 R_Free 0.289
crystal
cell
length a length b length c angle alpha angle beta angle gamma
44.830 177.470 180.660 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.30 Å
ligand NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


B


C


Primary referenceStructural insights into the assembly and activation of IL-1beta with its receptors., Wang D, Zhang S, Li L, Liu X, Mei K, Wang X, Nat Immunol. 2010 Aug 29. PMID:20802483
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (291 Kb) [Save to disk]
  • Biological Unit Coordinates (3o4o.pdb1.gz) 285 Kb
  • LPC: Ligand-Protein Contacts for 3O4O
  • CSU: Contacts of Structural Units for 3O4O
  • Structure Factors (177 Kb)
  • Retrieve 3O4O in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3O4O from S2C, [Save to disk]
  • Re-refined 3o4o structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3O4O 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 3O4O
  • 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 3O4O, from MSDmotif at EBI
  • Fold representative 3o4o from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3o4o] [3o4o_B] [3o4o_A] [3o4o_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3O4O: [IG] [IL1 ] by SMART
  • Other resources with information on 3O4O
  • Community annotation for 3O4O at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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