4DQM Revealing a marine natural product as a novel agonist for retinoic acid receptors with a unique binding mode and antitumor activity date
authors Wang, S., Wang, Z., Lin, S., Zheng, W., Wang, R., Jin, S., Chen, J., Jin, L., Li, Y.
compound source
symmetry
R_factor
R_Free 0.2594
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.75
ligand LUF enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C


Primary referenceRevealing a natural marine product as a novel agonist for retinoic acid receptors with a unique binding mode and inhibitory effects on cancer cells., Wang S, Wang Z, Lin S, Zheng W, Wang R, Jin S, Chen J, Jin L, Li Y, Biochem J. 2012 Aug 15;446(1):79-87. PMID:22642567
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (86 Kb) [Save to disk]
  • Biological Unit Coordinates (4dqm.pdb1.gz) 42 Kb
  • Biological Unit Coordinates (4dqm.pdb2.gz) 42 Kb
  • LPC: Ligand-Protein Contacts for 4DQM
  • CSU: Contacts of Structural Units for 4DQM
  • Structure Factors (275 Kb)
  • Retrieve 4DQM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4DQM from S2C, [Save to disk]
  • Re-refined 4dqm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4DQM 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 4DQM
  • 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 4DQM, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4dqm_A] [4dqm] [4dqm_B] [4dqm_C] [4dqm_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4DQM: [HOLI ] by SMART
    • Other resources with information on 4DQM
  • Community annotation for 4DQM at PDBWiki (http://pdbwiki.org)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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