3V66 Transferase Transferase Inhibitor date Dec 18, 2011
title Human Squalene Synthase In Complex With 2-(1-{2-[(4r,6s)-8-C (2,3-Dimethoxyphenyl)-4h,6h-Pyrrolo[1,2-A][4,1]Benzoxazepin Yl]Acetyl}-4-Piperidinyl)Acetic Acid
authors M.Suzuki, M.Ohtsuka, H.Ohki, N.Haginoya, M.Itoh, K.Sugita, H.Usui, M.Ichikawa, N.Higashihashi
compound source
Molecule: Squalene Synthase
Chain: A
Fragment: Soluble Domain, Unp Residues 31-370
Synonym: Sqs, Ss, Fpp:Fpp Farnesyltransferase, Farnesyl-Dip Farnesyltransferase;
Ec: 2.5.1.21
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Fdft1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pa-426
symmetry Space Group: C 1 2 1
R_factor 0.197 R_Free 0.224
crystal
cell
length a length b length c angle alpha angle beta angle gamma
87.438 60.144 85.797 90.00 117.14 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand D3A, PO4 BindingDB enzyme Transferase E.C.2.5.1.21 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceDiscovery of novel tricyclic compounds as squalene synthase inhibitors., Ichikawa M, Ohtsuka M, Ohki H, Haginoya N, Itoh M, Sugita K, Usui H, Suzuki M, Terayama K, Kanda A, Bioorg Med Chem. 2012 May 1;20(9):3072-93. doi: 10.1016/j.bmc.2012.02.054. Epub, 2012 Mar 8. PMID:22464687
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (67 Kb) [Save to disk]
  • Biological Unit Coordinates (3v66.pdb1.gz) 62 Kb
  • LPC: Ligand-Protein Contacts for 3V66
  • CSU: Contacts of Structural Units for 3V66
  • Structure Factors (958 Kb)
  • Retrieve 3V66 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3V66 from S2C, [Save to disk]
  • Re-refined 3v66 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3V66 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 3V66
  • 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 3V66, from MSDmotif at EBI
  • Fold representative 3v66 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3v66_A] [3v66]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3V66
  • Community annotation for 3V66 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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