3D0E

Crystal structure of human Akt2 in complex with GSK690693

Structural Biology Knowledgebase: 3D0E SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.206

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3D0E

Classification: TRANSFERASE INHIBITOR

Total Structure Weight: 78996.77

Macromolecule Entities
Molecule Chains Length Organism Details
RAC-beta serine/threonine-protein kinase A, B 335 Homo sapiens EC#: 2.7.11.1 IUBMB
Fragment: kinase domain
Mutation: S474D
Gene Name(s): AKT2 Gene View

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
G93
Query on G93

A, B 4-{2-(4-amino-1,2,5-oxadiazol-3-yl)-1-ethyl- 7-[(3S)-piperidin-3-ylmethoxy]-1H-imidazo[4,5- c]pyridin-4-yl}-2-methylbut-3-yn-2-ol
C21 H27 N7 O3
KGPGFQWBCSZGEL-ZDUSSCGKSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
G93 IC50: 0.6 - 13 nM (85 - 99) BindingDB
Kd: 2.1 - 2.2 nM (85 - 99) BindingDB
Ki: 1 - 4 nM (85 - 99) BindingDB

IC50: 13 nM  BindingMOAD
Ki: 4 nM  PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
TPO
Query on TPO
A, B L-PEPTIDE LINKING C4 H10 N O6 P THR

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.246
  • R-Value Work: 0.206
  • Space Group: P 32
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 116.49 α = 90.00
b = 116.49 β = 90.00
c = 45.12 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-05-01
  • Released Date: 2008-10-21
  • Deposition author(s): Concha, N.O., Smallwood, A.

Revision History

  • 2011-07-13
    Type: Flag residual B-value | Details: Tagged residual B temperature factor
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4