5A86 Structure of pregnane X receptor in complex with a Sphingosine 1- Phosphate Receptor 1 Antagonist date
authors Xue, Y., Oster, L.
compound source
symmetry
R_factor
R_Free 0.2555
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.25
ligand D7E enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceIdentification and Optimization of Benzimidazole Sulfonamides as Orally Bioavailable Sphingosine 1-Phosphate Receptor 1 Antagonists with in Vivo Activity., Hennessy EJ, Oza V, Adam A, Byth K, Castriotta L, Grewal G, Hamilton GA, Kamhi VM, Lewis P, Li D, Lyne P, Oster L, Rooney MT, Saeh JC, Sha L, Su Q, Wen S, Xue Y, Yang B, J Med Chem. 2015 Sep 10;58(17):7057-75. doi: 10.1021/acs.jmedchem.5b01078. Epub, 2015 Aug 26. PMID:26291341
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (109 Kb) [Save to disk]
  • Biological Unit Coordinates (5a86.pdb1.gz) 104 Kb
  • LPC: Ligand-Protein Contacts for 5A86
  • CSU: Contacts of Structural Units for 5A86
  • Structure Factors (674 Kb)
  • Retrieve 5A86 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5A86 from S2C, [Save to disk]
  • Re-refined 5a86 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5A86 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 5A86
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5a86_A] [5a86_B] [5a86_C] [5a86_D] [5a86]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5A86: [HOLI ] by SMART
    • Other resources with information on 5A86
  • Community annotation for 5A86 at PDBWiki (http://pdbwiki.org)

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