3THM Immune System date Aug 19, 2011
title Crystal Structure Of Fas Receptor Extracellular Domain In Co Fab Ep6b_b01
authors S.Zuger, C.Stirnimann, C.Briand, M.G.Grutter
compound source
Molecule: Fab Ep6b_b01, Light Chain
Chain: L
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Cricetulus Griseus
Expression_system_taxid: 10029
Expression_system_cell: Cho Cells

Molecule: Fab Ep6b_b01, Heavy Chain
Chain: H
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Cricetulus Griseus
Expression_system_taxid: 10029
Expression_system_cell: Cho Cells

Molecule: Tumor Necrosis Factor Receptor Superfamily Member
Chain: F
Fragment: Extracellular Domain
Synonym: Apo-1 Antigen, Apoptosis-Mediating Surface Antigen Faslg Receptor;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Apt1, Fas, Fas1, Tnfrsf6
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 31 2 1
R_factor 0.183 R_Free 0.221
crystal
cell
length a length b length c angle alpha angle beta angle gamma
94.510 94.510 139.200 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.10 Å
ligand EDO, FUC, NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
F


Primary referenceA series of Fas receptor agonist antibodies that demonstrate an inverse correlation between affinity and potency., Chodorge M, Zuger S, Stirnimann C, Briand C, Jermutus L, Grutter MG, Minter RR, Cell Death Differ. 2012 Jan 20. doi: 10.1038/cdd.2011.208. PMID:22261618
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (250 Kb) [Save to disk]
  • Biological Unit Coordinates (3thm.pdb1.gz) 243 Kb
  • LPC: Ligand-Protein Contacts for 3THM
  • CSU: Contacts of Structural Units for 3THM
  • Structure Factors (322 Kb)
  • Retrieve 3THM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3THM from S2C, [Save to disk]
  • Re-refined 3thm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3THM 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 3THM
  • 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 3THM, from MSDmotif at EBI
  • Fold representative 3thm from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3thm_H] [3thm_F] [3thm_L] [3thm]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3THM: [IG_like] [IGv] [TNFR ] by SMART
  • Other resources with information on 3THM
  • Community annotation for 3THM at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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