3G6D	Immune System	date	Feb 06, 2009
title	Crystal Structure Of The Complex Between Cnto607 Fab And Il-
authors	A.Teplyakov, G.Obmolova, G.L.Gilliland
compound		source
Molecule: Cnto607 Fab 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 293 Expression_system_organ: Kidney Expression_system_cell: Human Embryonic Kidney 293 Cells
Molecule: Cnto607 Fab 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 293 Expression_system_organ: Kidney Expression_system_cell: Human Embryonic Kidney 293 Cells
Molecule: Interleukin-13 Chain: A Fragment: Unp Residues 21-132 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 0.213 R_Free 0.263
crystal cell	length a length b length c angle alpha angle beta angle gamma 66.540 68.030 182.350 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	3.20 Å
ligand	SO4	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	Epitope Mapping of Anti-Interleukin-13 Neutralizing Antibody CNTO607., Teplyakov A, Obmolova G, Wu SJ, Luo J, Kang J, O'Neil K, Gilliland GL, J Mol Biol. 2009 Apr 8. PMID:19361524

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (87 Kb) [Save to disk] Biological Unit Coordinates (3g6d.pdb1.gz) 82 Kb Biological Unit Coordinates (3g6d.pdb2.gz) 82 Kb LPC: Ligand-Protein Contacts for 3G6D CSU: Contacts of Structural Units for 3G6D Likely Quarternary Molecular Structure file(s) for 3G6D Structure Factors (127 Kb) Retrieve 3G6D in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3G6D from S2C, [Save to disk] Re-refined 3g6d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3G6D 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 3G6D

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 3G6D, from MSDmotif at EBI Fold representative 3g6d from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3g6d_A] [3g6d_H] [3g6d_L] SWISS-PROT database: [P35225] Domain organization of [IL13_HUMAN] by SWISSPFAM Domains found in 3G6D: [IG_like] [IGv] [IL4_13 ] by SMART Alignments of the sequence of 3G6D with the sequences similar proteins can be viewed for 3G6D's classification [IL13_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 [IL13_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 3G6D

Community annotation for 3G6D at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

Movements, Movies and Images

Images from IMB Jena Image Library of Biological Macromolecules.

You may enter another PDB ID code

Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]

---

OCA© by Jaime Prilusky, 1996-2010 Bioinformatics Unit Weizmann Institute of Science

---