2O5X Immune System date Dec 06, 2006
title Crystal Structure Of 1e9 Leuh47trpargh100trp, An Engineered Alderase Fab With Nm Steroid-Binding Affinity
authors P.Verdino, I.A.Wilson
compound source
Molecule: Chimeric Antibody Fab 1e9-Db3
Chain: L
Fragment: Light Chain
Engineered: Yes
Mutation: Yes
Organism_scientific: Mus Musculus, Homo Sapiens
Organism_common: House Mouse, Human
Organism_taxid: 10090,9606
Strain: ,
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Topp2
Expression_system_vector_type: Plasmid
Expression_system_plasmid: P4xh-1e9

Molecule: Chimeric Antibody Fab 1e9-Db3
Chain: H
Fragment: Heavy Chain
Engineered: Yes
Mutation: Yes

Organism_scientific: Mus Musculus, Homo Sapiens
Organism_common: House Mouse, Human
Organism_taxid: 10090,9606
Strain: ,
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Topp2
Expression_system_vector_type: Plasmid
Expression_system_plasmid: P4xh-1e9
symmetry Space Group: P 31 2 1
R_factor 0.178 R_Free 0.204
crystal
cell
length a length b length c angle alpha angle beta angle gamma
127.573 127.573 91.928 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.05 Å
ligand SO4, TRS enzyme
Primary referenceClosely related antibody receptors exploit fundamentally different strategies for steroid recognition., Verdino P, Aldag C, Hilvert D, Wilson IA, Proc Natl Acad Sci U S A. 2008 Aug 19;105(33):11725-30. Epub 2008 Aug 8. PMID:18689687
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (85 Kb) [Save to disk]
  • Biological Unit Coordinates (2o5x.pdb1.gz) 79 Kb
  • Biological Unit Coordinates (2o5x.pdb2.gz) 155 Kb
  • Biological Unit Coordinates (2o5x.pdb3.gz) 155 Kb
  • LPC: Ligand-Protein Contacts for 2O5X
  • CSU: Contacts of Structural Units for 2O5X
  • Likely Quarternary Molecular Structure file(s) for 2O5X
  • Structure Factors (405 Kb)
  • Retrieve 2O5X in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2O5X from S2C, [Save to disk]
  • Re-refined 2o5x structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2O5X 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 2O5X
  • 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
  • 3D motif for 2O5X, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2o5x] [2o5x_L] [2o5x_H]
  • SWISS-PROT database: [P01857] [P01834] [P01631]
  • Domain organization of [IGHG1_HUMAN] [IGKC_HUMAN] [KV2A7_MOUSE] by SWISSPFAM
  • Domains found in 2O5X: [IG_like] [IGv ] by SMART
  • Other resources with information on 2O5X
  • Community annotation for 2O5X 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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