3L5Y	Immune System	date	Dec 22, 2009
title	Crystal Structure Of The Complex Between Il-13 And M1295 Fab
authors	A.Teplyakov, G.Obmolova, T.Malia, G.L.Gilliland
compound		source
Molecule: M1295 Light Chain Chain: L Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Homo Sapiens Expression_system_taxid: 9606 Expression_system_cell_line: Hek Cells
Molecule: M1295 Heavy Chain Chain: H Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Homo Sapiens Expression_system_taxid: 9606 Expression_system_cell_line: Hek Cells
Molecule: Interleukin-13 Chain: A Fragment: Unp Residues 35-146 Synonym: Il-13 Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Il13, Nc30 Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 21 21 21	R_factor 0.211 R_Free 0.265
crystal cell	length a length b length c angle alpha angle beta angle gamma 63.370 72.500 114.200 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.80 Å
ligand	PCA	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	Human Framework Adaptation of a Mouse Anti-Human IL-13 Antibody., Fransson J, Teplyakov A, Raghunathan G, Chi E, Cordier W, Dinh T, Feng Y, Giles-Komar J, Gilliland G, Lollo B, Malia TJ, Nishioka W, Obmolova G, Zhao S, Zhao Y, Swanson RV, Almagro JC, J Mol Biol. 2010 Mar 10. PMID:20226193

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (86 Kb) [Save to disk] Biological Unit Coordinates (3l5y.pdb1.gz) 82 Kb LPC: Ligand-Protein Contacts for 3L5Y CSU: Contacts of Structural Units for 3L5Y Structure Factors (94 Kb) Retrieve 3L5Y in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3L5Y from S2C, [Save to disk] Re-refined 3l5y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3L5Y 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 3L5Y

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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 3L5Y, from MSDmotif at EBI Fold representative 3l5y from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3l5y_A] [3l5y_H] [3l5y_L] SWISS-PROT database: Domain organization of by SWISSPFAM Alignments of the sequence of 3L5Y with the sequences similar proteins can be viewed for 3L5Y's classification 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 at ProtoMap. Click on the Cluster number.

Other resources with information on 3L5Y

Community annotation for 3L5Y at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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