4PS4 Immune System date Mar 06, 2014
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_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek

Molecule: M1295 Heavy Chain
Chain: H
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek

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 0.271
crystal
cell
length a length b length c angle alpha angle beta angle gamma
63.210 72.160 113.820 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand PCA enzyme
note 4PS4 supersedes 3L5Y
Gene
Ontology
ChainFunctionProcessComponent
A
  • cytokine activity


  • Primary referenceHuman 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 Apr 30;398(2):214-31. Epub 2010 Mar 10. PMID:20226193
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (85 Kb) [Save to disk]
  • Biological Unit Coordinates (4ps4.pdb1.gz) 81 Kb
  • LPC: Ligand-Protein Contacts for 4PS4
  • CSU: Contacts of Structural Units for 4PS4
  • Structure Factors (138 Kb)
  • Retrieve 4PS4 in mmCIF format [Save to disk]
  • Re-refined 4ps4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4PS4 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 4PS4
  • 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 4PS4, from MSDmotif at EBI
  • Fold representative 4ps4 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4ps4_A] [4ps4] [4ps4_H] [4ps4_L]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4PS4: [IGc1] [IGv] [IL4_13 ] by SMART
  • Alignments of the sequence of 4PS4 with the sequences similar proteins can be viewed for 4PS4'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 4PS4
  • Community annotation for 4PS4 at PDBWiki (http://pdbwiki.org)

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