3BPO	Cytokine Cytokine Receptor	date	Dec 18, 2007
title	Crystal Structure Of The Il13-Il4r-Il13ra Ternary Complex
authors	K.C.Garcia
compound		source
Molecule: Interleukin 13 Chain: A Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Il13 Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_strain: Sf9
Molecule: Interleukin-4 Receptor Alpha Chain Chain: B Fragment: Extracellular Domain, Residues 27-227 Synonym: Il-4r-Alpha, Cd124 Antigen, Soluble Interleukin-4 Alpha Chain; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Il4r, 582j2.1, Il4ra Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_strain: Sf9
Molecule: Interleukin-13 Receptor Alpha-1 Chain Chain: C Fragment: Extracellular Domain, Residues 29-342 Synonym: Il-13r-Alpha-1, Il-13ra-1, Cancertestis Antigen 1 Cd213a1 Antigen; Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Il13ra1, Il13r, Il13ra Expression_system: Spodoptera Frugiperda Expression_system_common: Fall Armyworm Expression_system_taxid: 7108 Expression_system_strain: Sf9
symmetry	Space Group: C 1 2 1	R_factor 0.253 R_Free 0.312
crystal cell	length a length b length c angle alpha angle beta angle gamma 211.510 58.169 64.236 90.00 100.51 90.00
method	X-Ray Diffraction	resolution	3.00 Å
ligand	NAG	enzyme
Gene Ontology	Chain Function Process Component A cytokine activity interleukin-13 receptor bind... protein binding positive regulation of immun... cellular component movement inflammatory response signal transduction cell-cell signaling response to mechanical stimu... regulation of proton transpo... positive regulation of B cel... response to lipopolysacchari... positive regulation of conne... response to nicotine positive regulation of tyros... positive regulation of macro... positive regulation of ion t... response to ethanol positive regulation of smoot... positive regulation of prote... positive regulation of relea... cellular response to mechani... cellular response to cytokin... negative regulation of trans... negative regulation of lung ... positive regulation of lung ... positive regulation of pancr... extracellular region extracellular space cytoplasm external side of plasma memb...
Primary reference	Molecular and Structural Basis of Cytokine Receptor Pleiotropy in the Interleukin-4/13 System., Laporte SL, Juo ZS, Vaclavikova J, Colf LA, Qi X, Heller NM, Keegan AD, Garcia KC, Cell. 2008 Jan 25;132(2):259-272. PMID:18243101

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (101 Kb) [Save to disk] Biological Unit Coordinates (3bpo.pdb1.gz) 92 Kb LPC: Ligand-Protein Contacts for 3BPO CSU: Contacts of Structural Units for 3BPO Likely Quarternary Molecular Structure file(s) for 3BPO Structure Factors (128 Kb) Retrieve 3BPO in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3BPO from S2C, [Save to disk] Re-refined 3bpo structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3BPO 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 3BPO

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 3BPO, from MSDmotif at EBI Fold representative 3bpo from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3bpo_A] [3bpo_B] [3bpo_C] SWISS-PROT database: [P78552] [P35225] [P24394] Domain organization of [I13R1_HUMAN] [IL13_HUMAN] [IL4RA_HUMAN] by SWISSPFAM Domains found in 3BPO: [FN3] [IL4_13 ] by SMART Alignments of the sequence of 3BPO with the sequences similar proteins can be viewed for 3BPO's classification [I13R1_HUMAN] [IL13_HUMAN] [IL4RA_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [I13R1_HUMAN] [IL13_HUMAN] [IL4RA_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 3BPO

Community annotation for 3BPO at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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