3TVX Hydrolase Hydrolase Inhibitor date Sep 20, 2011
title The Structure Of Pde4a With Pentoxifylline At 2.84a Resoluti
authors J.Badger, V.Sridhar
compound source
Molecule: Camp-Specific 3',5'-Cyclic Phosphodiesterase 4a
Chain: A, B
Fragment: Catalytic Domain Residues 351-683
Synonym: Dpde2, Pde46
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pde4a, Dpde2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 41 21 2
R_factor 0.220 R_Free 0.290
length a length b length c angle alpha angle beta angle gamma
104.938 104.938 163.652 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.84 Å
ligand MG, PNX, SO4, ZN BindingDB enzyme Hydrolase E.C. BRENDA
A, B

Primary referenceFragment-Based Screening for Inhibitors of PDE4A Using Enthalpy Arrays and X-ray Crystallography., Recht MI, Sridhar V, Badger J, Hernandez L, Chie-Leon B, Nienaber V, Torres FE, J Biomol Screen. 2012 Jan 5. PMID:22223051
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (114 Kb) [Save to disk]
  • Biological Unit Coordinates (3tvx.pdb1.gz) 56 Kb
  • Biological Unit Coordinates (3tvx.pdb2.gz) 56 Kb
  • LPC: Ligand-Protein Contacts for 3TVX
  • CSU: Contacts of Structural Units for 3TVX
  • Structure Factors (332 Kb)
  • Retrieve 3TVX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3TVX from S2C, [Save to disk]
  • Re-refined 3tvx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3TVX 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 3TVX
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3TVX, from MSDmotif at EBI
  • Fold representative 3tvx from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3tvx] [3tvx_B] [3tvx_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3TVX: [HDc ] by SMART
  • Other resources with information on 3TVX
  • Community annotation for 3TVX at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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