3ML8 Transferase Transferase Inhibitor date Apr 16, 2010
title Discovery Of The Highly Potent Pi3kmtor Dual Inhibitor Pf-0 Through Structure Based Drug Design
authors D.R.Knighton
compound source
Molecule: Phosphatidylinositol-4,5-Bisphosphate 3-Kinase Ca Subunit Gamma Isoform;
Chain: A
Synonym: Ptdins-3-Kinase Subunit Gamma, Pi3-Kinase Subunit Pi3k-Gamma, Phosphatidylinositol-4,5-Bisphosphate 3-Kinase Catalytic Subunit Gamma, Ptdins-3-Kinase Subunit P110-Gamma Pi3k;
Ec: 2.7.1.153
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pik3cg
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
symmetry Space Group: C 1 2 1
R_factor 0.246 R_Free 0.324
crystal
cell
length a length b length c angle alpha angle beta angle gamma
144.237 67.388 106.875 90.00 95.12 90.00
method X-Ray Diffractionresolution 2.70 Å
ligand ML8 enzyme Transferase E.C.2.7.1.153 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceDiscovery of the Highly Potent PI3K/mTOR Dual Inhibitor PF-04979064 through Structure-Based Drug Design., Cheng H, Li C, Bailey S, Baxi SM, Goulet L, Guo L, Hoffman J, Jiang Y, Johnson TO, Johnson TW, Knighton DR, Li J, Liu KK, Liu Z, Marx MA, Walls M, Wells PA, Yin MJ, Zhu J, Zientek M, ACS Med Chem Lett. 2012 Nov 7;4(1):91-7. doi: 10.1021/ml300309h. eCollection 2013, Jan 10. PMID:24900568
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (143 Kb) [Save to disk]
  • Biological Unit Coordinates (3ml8.pdb1.gz) 137 Kb
  • LPC: Ligand-Protein Contacts for 3ML8
  • CSU: Contacts of Structural Units for 3ML8
  • Structure Factors (350 Kb)
  • Retrieve 3ML8 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3ML8 from S2C, [Save to disk]
  • Re-refined 3ml8 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3ML8 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 3ML8
  • 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 3ML8, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ml8] [3ml8_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3ML8: [PI3K_C2] [PI3K_rbd] [PI3Ka] [PI3Kc ] by SMART
  • Other resources with information on 3ML8
  • Community annotation for 3ML8 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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