3FRG Hydrolase Hydrolase Inhibitor date Jan 08, 2009
title Catalytic Domain Of Human Phosphodiesterase 4b2b In Complex Quinoline Inhibitor
authors D.O.Somers, M.Neu
compound source
Molecule: Camp-Specific 3',5'-Cyclic Phosphodiesterase 4b
Chain: A
Fragment: Catalytic Domain
Synonym: Dpde4, Pde32
Ec: 3.1.4.17
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dpde4, Pde4b
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_vector_type: Baculovirus
symmetry Space Group: I 21 21 21
R_factor 0.209 R_Free 0.243
crystal
cell
length a length b length c angle alpha angle beta angle gamma
88.485 94.831 105.320 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand ARS, GOL, MG, SK4, ZN BindingDB enzyme Hydrolase E.C.3.1.4.17 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceQuinolines as a novel structural class of potent and selective PDE4 inhibitors: optimisation for oral administration., Lunniss CJ, Cooper AW, Eldred CD, Kranz M, Lindvall M, Lucas FS, Neu M, Preston AG, Ranshaw LE, Redgrave AJ, Ed Robinson J, Shipley TJ, Solanke YE, Somers DO, Wiseman JO, Bioorg Med Chem Lett. 2009 Mar 1;19(5):1380-5. Epub 2009 Jan 19. PMID:19195882
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (67 Kb) [Save to disk]
  • Biological Unit Coordinates (3frg.pdb1.gz) 122 Kb
  • Biological Unit Coordinates (3frg.pdb2.gz) 62 Kb
  • LPC: Ligand-Protein Contacts for 3FRG
  • CSU: Contacts of Structural Units for 3FRG
  • Structure Factors (369 Kb)
  • Retrieve 3FRG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3FRG from S2C, [Save to disk]
  • Re-refined 3frg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3FRG 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 3FRG
  • 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 3FRG, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3frg_A] [3frg]
  • SWISS-PROT database: [Q07343]
  • Domain organization of [PDE4B_HUMAN] by SWISSPFAM
  • Domain found in 3FRG: [HDc ] by SMART
  • Other resources with information on 3FRG
  • Community annotation for 3FRG at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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