3QKM Transferase Transferase Inhibitor date Feb 01, 2011
title Spirocyclic Sulfonamides As Akt Inhibitors
authors R.Xu, A.Banka, J.F.Blake, I.S.Mitchell, E.M.Wallace, S.L.Gloor, M.Martinson, T.Risom, S.D.Gross, T.Morales, G.P.A.Vigers, B.J.Br N.J.Skelton
compound source
Molecule: Rac-Alpha Serinethreonine-Protein Kinase
Chain: A
Fragment: Kinase Domain
Synonym: Protein Kinase B, Pkb, Proto-Oncogene C-Akt, Rac-P
Ec: 2.7.11.1
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Akt1, Pkb, Rac
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
symmetry Space Group: P 21 21 21
R_factor 0.188 R_Free 0.252
crystal
cell
length a length b length c angle alpha angle beta angle gamma
47.043 57.938 149.981 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand SM9, TPO enzyme Transferase E.C.2.7.11.1 BRENDA
Primary referenceDiscovery of spirocyclic sulfonamides as potent Akt inhibitors with exquisite selectivity against PKA., Xu R, Banka A, Blake JF, Mitchell IS, Wallace EM, Bencsik JR, Kallan NC, Spencer KL, Gloor SL, Martinson M, Risom T, Gross SD, Morales TH, Wu WI, Vigers GP, Brandhuber BJ, Skelton NJ, Bioorg Med Chem Lett. 2011 Apr 15;21(8):2335-40. Epub 2011 Feb 26. PMID:21420856
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (66 Kb) [Save to disk]
  • Biological Unit Coordinates (3qkm.pdb1.gz) 62 Kb
  • LPC: Ligand-Protein Contacts for 3QKM
  • CSU: Contacts of Structural Units for 3QKM
  • Structure Factors (150 Kb)
  • Retrieve 3QKM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3QKM from S2C, [Save to disk]
  • Re-refined 3qkm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3QKM 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 3QKM
  • 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 3QKM, from MSDmotif at EBI
  • Fold representative 3qkm from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3qkm] [3qkm_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3QKM: [S_TK_X] [S_TKc ] by SMART
  • Alignments of the sequence of 3QKM with the sequences similar proteins can be viewed for 3QKM's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3QKM
  • Community annotation for 3QKM 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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