6D26 Membrane Protein Antagonist date Apr 13, 2018
title Crystal Structure Of The Prostaglandin D2 Receptor Crth2 Wit Fevipiprant
authors L.Wang, D.Yao, K.Deepak, H.Liu, W.Gong, H.Fan, Z.Wei, C.Zhang
compound source
Molecule: Prostaglandin D2 Receptor 2, Endolysin Chimera
Chain: A
Fragment: Crth2 (Unp Residues 1-236), T4 Ligase (Unp Residu 61-161), Crth2 (Unp Residues 238-339);
Synonym: Chemoattractant Receptor-Homologous Molecule Expre Th2 Cells,G-Protein Coupled Receptor 44,Lysis Protein,Lysoz Muramidase;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens, Enterobacteria Phage T4
Organism_common: Human, Bacteriophage T4
Organism_taxid: 9606, 10665
Gene: Ptgdr2, Crth2, Dl1r, Gpr44, E, T4tp126
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_cell_line: Sf9
symmetry Space Group: P 21 21 21
R_factor 0.250 R_Free 0.280
length a length b length c angle alpha angle beta angle gamma
50.457 61.710 266.517 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand FSY, OLA, PGE, PGO, SIN, SO4, YCM enzyme

Primary referenceStructures of the Human PGD2 Receptor CRTH2 Reveal Novel Mechanisms for Ligand Recognition., Wang L, Yao D, Deepak RNVK, Liu H, Xiao Q, Fan H, Gong W, Wei Z, Zhang C, Mol Cell. 2018 Oct 4;72(1):48-59.e4. doi: 10.1016/j.molcel.2018.08.009. Epub 2018, Sep 13. PMID:30220562
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (161 Kb) [Save to disk]
  • Biological Unit Coordinates (6d26.pdb1.gz) 154 Kb
  • LPC: Ligand-Protein Contacts for 6D26
  • CSU: Contacts of Structural Units for 6D26
  • Structure Factors (135 Kb)
  • Retrieve 6D26 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6D26 from S2C, [Save to disk]
  • View 6D26 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 6D26
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6d26 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6d26_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6D26
  • Community annotation for 6D26 at PDBWiki (http://pdbwiki.org)

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