4WVD Identification of a novel FXR ligand that regulates metabolism date
authors Wang, R., Li, Y.
compound source
symmetry
R_factor
R_Free 0.30221
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.90
ligand FMT, IVM enzyme
note 4WVD supersedes 4II6
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceThe antiparasitic drug ivermectin is a novel FXR ligand that regulates metabolism., Jin L, Feng X, Rong H, Pan Z, Inaba Y, Qiu L, Zheng W, Lin S, Wang R, Wang Z, Wang S, Liu H, Li S, Xie W, Li Y, Nat Commun. 2013;4:1937. doi: 10.1038/ncomms2924. PMID:23728580
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (82 Kb) [Save to disk]
  • Biological Unit Coordinates (4wvd.pdb1.gz) 39 Kb
  • Biological Unit Coordinates (4wvd.pdb2.gz) 38 Kb
  • LPC: Ligand-Protein Contacts for 4WVD
  • CSU: Contacts of Structural Units for 4WVD
  • Structure Factors (310 Kb)
  • Retrieve 4WVD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4WVD from S2C, [Save to disk]
  • Re-refined 4wvd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4WVD 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 4WVD
  • 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 4WVD, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4wvd_A] [4wvd] [4wvd_D] [4wvd_C] [4wvd_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4WVD: [HOLI ] by SMART
  • Other resources with information on 4WVD
  • Community annotation for 4WVD at PDBWiki (http://pdbwiki.org)

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